Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 23 of 182
Found at i:7767709 original size:29 final size:30
Alignment explanation
Indices: 7767650--7767707 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
7767640 TCCGAGCCTT
*
7767650 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
7767680 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
7767708 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:7767937 original size:13 final size:13
Alignment explanation
Indices: 7767919--7767950 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7767909 TTTCCAGCAA
7767919 TTATGAATTTATT
1 TTATGAATTTATT
7767932 TTATGAATTTATT
1 TTATGAATTTATT
*
7767945 TGATGA
1 TTATGA
7767951 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:7768125 original size:50 final size:50
Alignment explanation
Indices: 7768045--7768229 Score: 361
Period size: 50 Copynumber: 3.7 Consensus size: 50
7768035 ATTTGGGTAA
*
7768045 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
7768095 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
7768145 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
7768195 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
7768230 TTTGGCATGT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.26, C:0.24, G:0.33, T:0.17
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:7774409 original size:40 final size:37
Alignment explanation
Indices: 7774343--7774477 Score: 152
Period size: 35 Copynumber: 3.7 Consensus size: 37
7774333 CATGGCAAAG
*
7774343 TGTGAAATGTAGGTATGGTA-TT-ATCCATATTGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
7774378 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATT-TC--ATCCATACTGAGT
** * * *
7774418 TAAGAAACGTAGGTATGGCATTTC--CCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
*
7774453 TGTAAAATGTAGGTATGGTATTTCA
1 TGTGAAATGTAGGTATGGTATTTCA
7774478 ATGAGGAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
35 49 0.59
36 1 0.01
37 1 0.01
39 2 0.02
40 30 0.36
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
Found at i:7782213 original size:20 final size:20
Alignment explanation
Indices: 7782188--7782231 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
7782178 GCAACCCAAT
7782188 TTTTAT-TT-TTATTTTATTTA
1 TTTTATCTTATTA-TTTA-TTA
7782208 TTTTATCTTATTATTTATTA
1 TTTTATCTTATTATTTATTA
7782228 TTTT
1 TTTT
7782232 CAGATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 13 0.59
21 6 0.27
22 3 0.14
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTATCTTATTATTTATTA
Found at i:7783163 original size:98 final size:99
Alignment explanation
Indices: 7782981--7783173 Score: 261
Period size: 97 Copynumber: 1.9 Consensus size: 99
7782971 TTAAGAATGC
* *
7782981 GTTGGGCTGAGTAACCGGGGTTTGGTGCTTGGGTTGTCATCACTCTTCGCGTCAAAAGGTTCGAC
1 GTTGGGCTGAGTAACCGGGGTTTGGTGCTTGGGCTGTCATCACTCTTCGCGTCAAAAGGTTCAAC
* * *
7783046 ATGTTCTTAGGAAAAAT-AA-AAAATAAAAAGTAT
66 A-GTACATAGCAAAAATAAATAAAATAAAAAGTAT
7783079 GTTGGGCTGAGTAACCGGGGTTTGGTGCTT-GGCTGTCATCACTCTTCGCGTCAAAAGGTTCAAC
1 GTTGGGCTGAGTAACCGGGGTTTGGTGCTTGGGCTGTCATCACTCTTCGCGTCAAAAGGTTCAAC
7783143 A-TACATA-CACACATACATAAATAAAATAAAA
66 AGTACATAGCA-A-A-A-ATAAATAAAATAAAA
7783174 TAAAAAGTAA
Statistics
Matches: 84, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
94 1 0.01
95 5 0.06
96 1 0.01
97 34 0.40
98 32 0.38
99 2 0.02
100 9 0.11
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (99 bp):
GTTGGGCTGAGTAACCGGGGTTTGGTGCTTGGGCTGTCATCACTCTTCGCGTCAAAAGGTTCAAC
AGTACATAGCAAAAATAAATAAAATAAAAAGTAT
Found at i:7783186 original size:7 final size:7
Alignment explanation
Indices: 7783175--7783207 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
7783165 AAAATAAAAT
7783175 AAAAAGTA
1 AAAAAG-A
7783183 AAAAA-A
1 AAAAAGA
7783189 AAAAAGA
1 AAAAAGA
7783196 AAAAAGA
1 AAAAAGA
7783203 AAAAA
1 AAAAA
7783208 AAGAGAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.25
7 13 0.54
8 5 0.21
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (7 bp):
AAAAAGA
Found at i:7783205 original size:16 final size:16
Alignment explanation
Indices: 7783182--7783216 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
7783172 AATAAAAAGT
7783182 AAAAAAAAAAAAGA-A
1 AAAAAAAAAAAAGAGA
7783197 AAAAGAAAAAAAAGAGA
1 AAAA-AAAAAAAAGAGA
7783214 AAA
1 AAA
7783217 TATATGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 10 0.56
17 4 0.22
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAGAGA
Found at i:7784446 original size:27 final size:27
Alignment explanation
Indices: 7784416--7784502 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 27
7784406 GTGACGAAGT
*
7784416 CACCAAATACAGAAATTGTGGCAGAGC
1 CACCAGATACAGAAATTGTGGCAGAGC
* *
7784443 CACCAGA-ACAGATATATATGGCAGAGC
1 CACCAGATACAGAAAT-TGTGGCAGAGC
*
7784470 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGA-AATTGTGGCAGAGC
7784497 CACCAG
1 CACCAG
7784503 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
26 7 0.14
27 42 0.82
28 2 0.04
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGAAATTGTGGCAGAGC
Found at i:7786370 original size:24 final size:24
Alignment explanation
Indices: 7786342--7786392 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
7786332 AGTTGAGGTT
7786342 ATTGTTGACGCATAGTCTCTTCTG
1 ATTGTTGACGCATAGTCTCTTCTG
7786366 ATTGTTGACGCATAGTCTCTTCTG
1 ATTGTTGACGCATAGTCTCTTCTG
7786390 ATT
1 ATT
7786393 CCCAAGTAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.43
Consensus pattern (24 bp):
ATTGTTGACGCATAGTCTCTTCTG
Found at i:7791281 original size:27 final size:27
Alignment explanation
Indices: 7791233--7791337 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
7791223 GCGAGGCTGC
* *
7791233 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
7791260 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
7791286 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
7791313 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
7791338 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 8 0.11
27 60 0.85
28 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:7793012 original size:15 final size:15
Alignment explanation
Indices: 7792992--7793021 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7792982 CATTTTATTT
*
7792992 ATATTAGGATAATTA
1 ATATTAAGATAATTA
7793007 ATATTAAGATAATTA
1 ATATTAAGATAATTA
7793022 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:7802853 original size:30 final size:30
Alignment explanation
Indices: 7802796--7802853 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
7802786 CACGGCCATG
* *
7802796 ACACATGGGAGTGTGGTCTACCTGTGTGTC
1 ACACACGGGAGTGTGGTCTACCCGTGTGTC
*
7802826 ACACACGGGTGTGTGGATC-ACCCGTGTG
1 ACACACGGGAGTGTGG-TCTACCCGTGTG
7802854 AAAGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.17, C:0.22, G:0.34, T:0.26
Consensus pattern (30 bp):
ACACACGGGAGTGTGGTCTACCCGTGTGTC
Found at i:7804380 original size:3 final size:3
Alignment explanation
Indices: 7804372--7804406 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
7804362 AGATATTTAC
*
7804372 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7804407 TACAAATGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7804555 original size:16 final size:16
Alignment explanation
Indices: 7804531--7804561 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7804521 TAAGTAAATA
*
7804531 AAATGAAATAAAGAAT
1 AAATAAAATAAAGAAT
7804547 AAATAAAATAAAGAA
1 AAATAAAATAAAGAA
7804562 ACAAAAGAAA
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:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (16 bp):
AAATAAAATAAAGAAT
Found at i:7807289 original size:15 final size:16
Alignment explanation
Indices: 7807269--7807298 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7807259 GGAGTTTTGG
7807269 GTTTTC-TTATGCTTT
1 GTTTTCTTTATGCTTT
7807284 GTTTTCTTTATGCTT
1 GTTTTCTTTATGCTT
7807299 ATGAGATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.07, C:0.13, G:0.13, T:0.67
Consensus pattern (16 bp):
GTTTTCTTTATGCTTT
Found at i:7811722 original size:65 final size:62
Alignment explanation
Indices: 7811559--7811723 Score: 174
Period size: 62 Copynumber: 2.6 Consensus size: 62
7811549 CAATGTTACT
** *
7811559 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATATATTTAATTTATATAACAA
1 AATTTATACCACAAAGTTTGTTCCAAGTTTTAATGTTGTAATATATGTAATTTATATAACAA
** * *
7811621 AATTTATATTACAAAGTATGTTCCAAGTTTTAATGTTGTAATGT-TGTAATGTTGCA-ATTAATC
1 AATTTATACCACAAAGTTTGTTCCAAGTTTTAATGTTGTAATATATGTAAT-TT--ATA-TAA-C
*
7811684 -T
61 AA
*
7811685 AATTTATGACCATAAAGTTTGTTCCAAGTTTTAATGTTG
1 AATTTAT-ACCACAAAGTTTGTTCCAAGTTTTAATGTTG
7811724 CAATTAATCT
Statistics
Matches: 89, Mismatches: 8, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
61 5 0.06
62 44 0.49
63 1 0.01
64 11 0.12
65 28 0.31
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (62 bp):
AATTTATACCACAAAGTTTGTTCCAAGTTTTAATGTTGTAATATATGTAATTTATATAACAA
Found at i:7812239 original size:6 final size:6
Alignment explanation
Indices: 7812193--7812238 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
7812183 GTATGCGACC
* * * *
7812193 GCTCGG GCTCAG GCTCGG GCTCGG GCTCAG GCTCGA GCTCTG GCTC
1 GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTC
7812239 TAGCTCGGCC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.07, C:0.35, G:0.39, T:0.20
Consensus pattern (6 bp):
GCTCGG
Found at i:7812245 original size:18 final size:18
Alignment explanation
Indices: 7812193--7812238 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
7812183 GTATGCGACC
*
7812193 GCTCGGGCTCAGGCTCGG
1 GCTCGGGCTCAGGCTCGA
7812211 GCTCGGGCTCAGGCTCGA
1 GCTCGGGCTCAGGCTCGA
*
7812229 GCTCTGGCTC
1 GCTCGGGCTC
7812239 TAGCTCGGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.07, C:0.35, G:0.39, T:0.20
Consensus pattern (18 bp):
GCTCGGGCTCAGGCTCGA
Found at i:7812903 original size:14 final size:14
Alignment explanation
Indices: 7812884--7812920 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
7812874 TAAATTACAT
*
7812884 GTTAGAGTAGTATC
1 GTTAGAATAGTATC
7812898 GTTAGAATAGTATC
1 GTTAGAATAGTATC
*
7812912 ATTAGAATA
1 GTTAGAATA
7812921 AAATGTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:7814960 original size:19 final size:18
Alignment explanation
Indices: 7814927--7814965 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
7814917 ATTTTTTTCC
7814927 TTCTCTTTCTCCTTCCCT
1 TTCTCTTTCTCCTTCCCT
* *
7814945 TTCTCTATTCTGCTTCTCT
1 TTCTCT-TTCTCCTTCCCT
7814964 TT
1 TT
7814966 TTTTCTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.03, C:0.36, G:0.03, T:0.59
Consensus pattern (18 bp):
TTCTCTTTCTCCTTCCCT
Found at i:7818916 original size:24 final size:25
Alignment explanation
Indices: 7818889--7818937 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
7818879 CTTTTTTTAT
*
7818889 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
7818913 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
7818938 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:7818930 original size:25 final size:23
Alignment explanation
Indices: 7818901--7818946 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
7818891 AATAAAAAAC
*
7818901 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
7818926 TTTAAAACATAAAAACAAATA
1 TTTAAAACATAAAAACAAATA
7818947 TTAAAATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:7821628 original size:14 final size:15
Alignment explanation
Indices: 7821611--7821641 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
7821601 AAAAATAATA
7821611 AAAGAAAAGA-AAAG
1 AAAGAAAAGAGAAAG
7821625 AAAGAAAAGAGAAAG
1 AAAGAAAAGAGAAAG
7821640 AA
1 AA
7821642 GAACGCACGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAGAAAG
Found at i:7823256 original size:53 final size:54
Alignment explanation
Indices: 7823152--7823256 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 54
7823142 CCGTGTGACC
* * * * *
7823152 CAAGTCAGTGAGTTATATGGATAGAGACACGGGCTAGGGCATGGCCTTGTGTTT
1 CAAGTCAGTGAGTTACATGGAAAGAGACACGGGCTAGGACACGGCCATGTGTTT
7823206 CAAGTCAGTGAGTTACA-GGAAA-AGGACACGGGCTAGGACACGGCCATGTGT
1 CAAGTCAGTGAGTTACATGGAAAGA-GACACGGGCTAGGACACGGCCATGTGT
7823257 CCCCTATTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
52 1 0.02
53 28 0.62
54 16 0.36
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (54 bp):
CAAGTCAGTGAGTTACATGGAAAGAGACACGGGCTAGGACACGGCCATGTGTTT
Found at i:7828885 original size:13 final size:13
Alignment explanation
Indices: 7828867--7828891 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7828857 CGTGTGCGAC
7828867 ACACGGTCATGTT
1 ACACGGTCATGTT
7828880 ACACGGTCATGT
1 ACACGGTCATGT
7828892 GTCCCCTGGG
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:0.24, T:0.28
Consensus pattern (13 bp):
ACACGGTCATGTT
Found at i:7830476 original size:25 final size:24
Alignment explanation
Indices: 7830328--7830477 Score: 65
Period size: 26 Copynumber: 6.0 Consensus size: 24
7830318 TTATGAGCGA
7830328 CCCGATACATGGCTCTTCGTGAGCTT
1 CCCGATA-ATGGCTCTTCG-GAGCTT
** * *
7830354 CCCGATTAAAAGATCTTTGTGAGCTT
1 CCCGA-TAATGGCTCTTCG-GAGCTT
* * *
7830380 CCTGATTAATTGGCTCTCCAGAGCTT
1 CCCGA-TAA-TGGCTCTTCGGAGCTT
*
7830406 CCCGAT-ATGGCTCACTT--GAACTT
1 CCCGATAATGGCT--CTTCGGAGCTT
* * * *
7830429 TCTGATATATGGCT-ATCTAGAGCTT
1 CCCGATA-ATGGCTCTTC-GGAGCTT
7830454 CCCGATTAATGGCTCTTCGGAGCT
1 CCCGA-TAATGGCTCTTCGGAGCT
7830478 ACCTGTTATT
Statistics
Matches: 91, Mismatches: 22, Indels: 23
0.67 0.16 0.17
Matches are distributed among these distances:
22 1 0.01
23 14 0.15
24 1 0.01
25 28 0.31
26 41 0.45
27 6 0.07
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (24 bp):
CCCGATAATGGCTCTTCGGAGCTT
Found at i:7830491 original size:74 final size:73
Alignment explanation
Indices: 7830374--7830515 Score: 169
Period size: 74 Copynumber: 1.9 Consensus size: 73
7830364 AGATCTTTGT
* * * *
7830374 GAGCTTCCTGATTAATTGGCTCTCCAGAGCTTCCCGATATGGCTCACTTGAACTTTCTGATATAT
1 GAGCTTCCCGATTAATTGGCTCTCCAGAGCTACCCGATATGGCTCACATGAACTTCCTGAT-TAT
7830439 GGCTATCTA
65 GGCTATCTA
* * * * * *
7830448 GAGCTTCCCGATTAA-TGGCTCTTCGGAGCTACCTGTTATTGGCTCGCATGAGCTTCCTGATTAT
1 GAGCTTCCCGATTAATTGGCTCTCCAGAGCTACCCGATA-TGGCTCACATGAACTTCCTGATTAT
7830512 GGCT
65 GGCT
7830516 CTTATGAGTT
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
73 25 0.44
74 32 0.56
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (73 bp):
GAGCTTCCCGATTAATTGGCTCTCCAGAGCTACCCGATATGGCTCACATGAACTTCCTGATTATG
GCTATCTA
Found at i:7830522 original size:24 final size:24
Alignment explanation
Indices: 7830373--7830528 Score: 88
Period size: 25 Copynumber: 6.4 Consensus size: 24
7830363 AAGATCTTTG
*
7830373 TGAGCTTCCTGATTAATTGGCTCTCCA
1 TGAGCTTCCTGATT-A-TGGCTCT-TA
* *
7830400 -GAGCTTCCCGA-TATGGCTCACT-
1 TGAGCTTCCTGATTATGGCTC-TTA
* * *
7830422 TGAACTTTCTGATATATGGCTATCTA
1 TGAGCTTCCTGAT-TATGGCTCT-TA
* *
7830448 -GAGCTTCCCGATTAATGGCTCTTC
1 TGAGCTTCCTGATT-ATGGCTCTTA
* * **
7830472 GGAGCTACCTG-TTATTGGCTCGCA
1 TGAGCTTCCTGATTA-TGGCTCTTA
7830496 TGAGCTTCCTGATTATGGCTCTTA
1 TGAGCTTCCTGATTATGGCTCTTA
*
7830520 TGAGTTTCC
1 TGAGCTTCC
7830529 CGTTATACAG
Statistics
Matches: 96, Mismatches: 23, Indels: 23
0.68 0.16 0.16
Matches are distributed among these distances:
23 15 0.16
24 35 0.36
25 36 0.38
26 10 0.10
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (24 bp):
TGAGCTTCCTGATTATGGCTCTTA
Found at i:7833010 original size:27 final size:27
Alignment explanation
Indices: 7832949--7833010 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
7832939 CCAACGCCAG
**
7832949 TCTCCACATCAATCACCACAAAGTTCG
1 TCTCCACATCAATCACCACAAAGTTAA
* *
7832976 TCTCCACATCAATCACCATAGAGTTAA
1 TCTCCACATCAATCACCACAAAGTTAA
*
7833003 TCTTCACA
1 TCTCCACA
7833011 AATTCAGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.34, G:0.06, T:0.26
Consensus pattern (27 bp):
TCTCCACATCAATCACCACAAAGTTAA
Found at i:7837506 original size:30 final size:29
Alignment explanation
Indices: 7837466--7837553 Score: 115
Period size: 29 Copynumber: 3.0 Consensus size: 29
7837456 AATTTTTTAT
*
7837466 TTTCCCCTAAAATTTTTGCTCCCTCCCAC
1 TTTCCCCTAAAATTTTTACTCCCTCCCAC
*
7837495 TTTCCTCCTAAAA-TTTTACTCCCTCCCAT
1 TTTCC-CCTAAAATTTTTACTCCCTCCCAC
*
7837524 TTTCCCCCTAAAATTTTTACTTCCTTCCCA
1 TTT-CCCCTAAAATTTTTAC-TCCCTCCCA
7837554 TCCCACCTCT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
29 29 0.56
30 15 0.29
31 8 0.15
ACGTcount: A:0.19, C:0.39, G:0.01, T:0.41
Consensus pattern (29 bp):
TTTCCCCTAAAATTTTTACTCCCTCCCAC
Found at i:7838103 original size:181 final size:182
Alignment explanation
Indices: 7837889--7838252 Score: 712
Period size: 182 Copynumber: 2.0 Consensus size: 182
7837879 ATGCCATTAA
7837889 ACATTCATGTTAAAAATTTATATTGGTATCAATTTCACATTTTATCTTTAAAATAATTTTTATT-
1 ACATTCATGTTAAAAATTTATATTGGTATCAATTTCACATTTTATCTTTAAAATAATTTTTATTA
*
7837953 AAAAATCATATTTTTACATTTAATATATTTTTTAATTCCAATATACATAGTGACAACAATCTAAA
66 AAAAATCACATTTTTACATTTAATATATTTTTTAATTCCAATATACATAGTGACAACAATCTAAA
7838018 GATAATTGAAACAACTAAGCAAGCAAAGAAGCTAACCTGTATATAAAAGATT
131 GATAATTGAAACAACTAAGCAAGCAAAGAAGCTAACCTGTATATAAAAGATT
7838070 ACATTCATGTTAAAAATTTATATTGGTATCAATTTCACATTTTATCTTTAAAATAATTTTTATTA
1 ACATTCATGTTAAAAATTTATATTGGTATCAATTTCACATTTTATCTTTAAAATAATTTTTATTA
7838135 AAAAATCACATTTTTACATTTAATATATTTTTTAATTCCAATATACATAGTGACAACAATCTAAA
66 AAAAATCACATTTTTACATTTAATATATTTTTTAATTCCAATATACATAGTGACAACAATCTAAA
7838200 GATAATTGAAACAACTAAGCAAGCAAAGAAGCTAACCTGTATATAAAAGATT
131 GATAATTGAAACAACTAAGCAAGCAAAGAAGCTAACCTGTATATAAAAGATT
7838252 A
1 A
7838253 ATAAATAAAT
Statistics
Matches: 181, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
181 64 0.35
182 117 0.65
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (182 bp):
ACATTCATGTTAAAAATTTATATTGGTATCAATTTCACATTTTATCTTTAAAATAATTTTTATTA
AAAAATCACATTTTTACATTTAATATATTTTTTAATTCCAATATACATAGTGACAACAATCTAAA
GATAATTGAAACAACTAAGCAAGCAAAGAAGCTAACCTGTATATAAAAGATT
Found at i:7841418 original size:2 final size:2
Alignment explanation
Indices: 7841411--7841453 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7841401 AATTCAAGGT
7841411 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
7841453 A
1 A
7841454 TATATATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:7845218 original size:27 final size:27
Alignment explanation
Indices: 7845188--7845272 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
7845178 CCTGATTATT
*
7845188 TGAATTATGTTAGAATCCATGATTGAG
1 TGAATTATGTTAGAATCCATGATTGAA
* *
7845215 TGAATTA--TTAG-GTCCTTGATT-ATA
1 TGAATTATGTTAGAATCCATGATTGA-A
*
7845239 TGAATTATGTTAGAATCCATGATTGAC
1 TGAATTATGTTAGAATCCATGATTGAA
7845266 TGAATTA
1 TGAATTA
7845273 ATTCGGTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
23 1 0.02
24 15 0.32
25 4 0.09
26 4 0.09
27 22 0.47
28 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
TGAATTATGTTAGAATCCATGATTGAA
Found at i:7845226 original size:51 final size:51
Alignment explanation
Indices: 7845170--7845272 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
7845160 AAATTATACA
* *
7845170 ATTAGGTCCCTGATTATTTGAATTATGTTAGAATCCATGATTGAGTGAATT
1 ATTAGGTCCCTGATTATATGAATTATGTTAGAATCCATGATTGACTGAATT
*
7845221 ATTAGGTCCTTGATTATATGAATTATGTTAGAATCCATGATTGACTGAATT
1 ATTAGGTCCCTGATTATATGAATTATGTTAGAATCCATGATTGACTGAATT
7845272 A
1 A
7845273 ATTCGGTAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (51 bp):
ATTAGGTCCCTGATTATATGAATTATGTTAGAATCCATGATTGACTGAATT
Found at i:7845242 original size:24 final size:24
Alignment explanation
Indices: 7845170--7845246 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
7845160 AAATTATACA
* *
7845170 ATTAGGTCCCTGATTATTTGAATT
1 ATTAGGTCCATGATTATATGAATT
* *
7845194 ATGTTAGAATCCATGATTGA-GTGAATT
1 A--TTAG-GTCCATGATT-ATATGAATT
*
7845221 ATTAGGTCCTTGATTATATGAATT
1 ATTAGGTCCATGATTATATGAATT
7845245 AT
1 AT
7845247 GTTAGAATCC
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
23 1 0.02
24 17 0.40
25 4 0.10
26 4 0.10
27 15 0.36
28 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (24 bp):
ATTAGGTCCATGATTATATGAATT
Found at i:7847418 original size:2 final size:2
Alignment explanation
Indices: 7847413--7847455 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7847403 ATGATATATA
7847413 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
7847455 T
1 T
7847456 ATCTATGTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:7848337 original size:6 final size:6
Alignment explanation
Indices: 7848328--7848355 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7848318 AATAAAATAA
7848328 ATATTT ATATTT ATATTT ATATTT ATAT
1 ATATTT ATATTT ATATTT ATATTT ATAT
7848356 ATTTTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATATTT
Found at i:7848363 original size:21 final size:20
Alignment explanation
Indices: 7848333--7848373 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
7848323 AATAAATATT
* *
7848333 TATATTTATATTTATATTTA
1 TATATTTATAATTAAATTTA
7848353 TATATTTTATAATTAAATTTA
1 TATA-TTTATAATTAAATTTA
7848374 AATAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TATATTTATAATTAAATTTA
Found at i:7854893 original size:20 final size:20
Alignment explanation
Indices: 7854868--7854908 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
7854858 ATTGGATGTG
7854868 ATACACCACAGTTTCCAGGA
1 ATACACCACAGTTTCCAGGA
7854888 ATACACCACAGTTTCCAGGA
1 ATACACCACAGTTTCCAGGA
7854908 A
1 A
7854909 AGACTACTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.20
Consensus pattern (20 bp):
ATACACCACAGTTTCCAGGA
Found at i:7857115 original size:9 final size:9
Alignment explanation
Indices: 7857101--7857125 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
7857091 TAATAATATC
7857101 TTCTTCATA
1 TTCTTCATA
7857110 TTCTTCATA
1 TTCTTCATA
7857119 TTCTTCA
1 TTCTTCA
7857126 CAGGTTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.24, G:0.00, T:0.56
Consensus pattern (9 bp):
TTCTTCATA
Found at i:7858071 original size:19 final size:20
Alignment explanation
Indices: 7858049--7858089 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7858039 TATTTATACA
*
7858049 AAATGTAATA-ATTAAGAAT
1 AAATGTAATATATTAAAAAT
*
7858068 AAATTTAATATATTAAAAAT
1 AAATGTAATATATTAAAAAT
7858088 AA
1 AA
7858090 TAGTTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
AAATGTAATATATTAAAAAT
Found at i:7858474 original size:29 final size:25
Alignment explanation
Indices: 7858413--7858474 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 25
7858403 ACTCTCTTTA
7858413 TTTTATTTTAATTTATAATTTAATC
1 TTTTATTTTAATTTATAATTTAATC
* *
7858438 TCTATATTTTTATTTATACAAATTTAATTC
1 T-TTTATTTTAATTTAT---AATTTAA-TC
7858468 TTTTATT
1 TTTTATT
7858475 ATTTTTTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 1 0.03
26 13 0.45
29 12 0.41
30 3 0.10
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTATTTTAATTTATAATTTAATC
Found at i:7859295 original size:21 final size:21
Alignment explanation
Indices: 7859271--7859311 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7859261 TAAGAAATAC
*
7859271 CATAAAATTCTTAAAATTTTT
1 CATAAAATTCTAAAAATTTTT
*
7859292 CATAATATTCTAAAAATTTT
1 CATAAAATTCTAAAAATTTT
7859312 CTAAAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (21 bp):
CATAAAATTCTAAAAATTTTT
Found at i:7866295 original size:40 final size:38
Alignment explanation
Indices: 7866208--7866305 Score: 123
Period size: 35 Copynumber: 2.6 Consensus size: 38
7866198 GTTTTCCTCA
*
7866208 TTGAAATACCATACCTACATTT-TTCAACTCGGTATGG
1 TTGAAATACCATACCTACATTTCTTCAACTCAGTATGG
*
7866245 --GAAATGCCATACCTACATTTCTT-AACTCAGTATGG
1 TTGAAATACCATACCTACATTTCTTCAACTCAGTATGG
7866280 ATTTGATAATACCATACCTACATTTC
1 --TTGA-AATACCATACCTACATTTC
7866306 ACAGCTCCAC
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
35 30 0.58
36 2 0.04
39 2 0.04
40 18 0.35
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (38 bp):
TTGAAATACCATACCTACATTTCTTCAACTCAGTATGG
Found at i:7870543 original size:42 final size:42
Alignment explanation
Indices: 7870494--7870608 Score: 142
Period size: 42 Copynumber: 2.7 Consensus size: 42
7870484 CTTCGTTTTC
** * *
7870494 TCGATGCCATAGTTCAACTATGGTTTTACACATTTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
7870537 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
* *
7870578 TCGATGCCATAGCCCAGCTATAGTCTTACAC
1 TCGATGCCATAGCCCAACTATGGTCTTACAC
7870609 GAATCACGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 2 0.03
42 61 0.95
43 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:7870640 original size:46 final size:47
Alignment explanation
Indices: 7870580--7870698 Score: 141
Period size: 47 Copynumber: 2.6 Consensus size: 47
7870570 TTCATATATC
* * * * * *
7870580 GATGCCATAGCCCAGCTATAGTCTTACAC-GAATCACGTATCTCACT
1 GATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACACT
* * *
7870626 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACACT
1 GATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACACT
*
7870673 GATGACATATCCCAGATATGGTCTTA
1 GATGCCATATCCCAGATATGGTCTTA
7870699 TATGGAAATC
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
46 25 0.40
47 37 0.60
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (47 bp):
GATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACACT
Found at i:7870769 original size:31 final size:31
Alignment explanation
Indices: 7870734--7870823 Score: 153
Period size: 31 Copynumber: 2.9 Consensus size: 31
7870724 CTTGTAGCGA
* *
7870734 AGCTACCACTATTCACTGATAAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
*
7870765 AGCTACCATTTTTCACTGATCAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
7870796 AGCTACCACTTTTCACTGATCAGGTAGC
1 AGCTACCACTTTTCACTGATCAGGTAGC
7870824 TTTCACTGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAGCCGG
Found at i:7870829 original size:18 final size:18
Alignment explanation
Indices: 7870806--7870841 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7870796 AGCTACCACT
*
7870806 TTTCACTGATCAGGTAGC
1 TTTCACTGATCAAGTAGC
7870824 TTTCACTGATCAAGTAGC
1 TTTCACTGATCAAGTAGC
7870842 CGGAACTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (18 bp):
TTTCACTGATCAAGTAGC
Found at i:7870854 original size:49 final size:49
Alignment explanation
Indices: 7870775--7870872 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
7870765 AGCTACCATT
* *
7870775 TTTCACTGATCAGGTAGCCGGAGCTACCACTTTTCACTGATCAGGTAGC
1 TTTCACTGATCAAGTAGCCGGAACTACCACTTTTCACTGATCAGGTAGC
*
7870824 TTTCACTGATCAAGTAGCCGGAACTGCCACTTTTCACTGATCAGGTAGC
1 TTTCACTGATCAAGTAGCCGGAACTACCACTTTTCACTGATCAGGTAGC
7870873 AGAAGCTACC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
TTTCACTGATCAAGTAGCCGGAACTACCACTTTTCACTGATCAGGTAGC
Found at i:7870859 original size:80 final size:80
Alignment explanation
Indices: 7870745--7870905 Score: 252
Period size: 80 Copynumber: 2.0 Consensus size: 80
7870735 GCTACCACTA
* * * *
7870745 TTCACTGATAAGGTAGCCGGAGCTACCATTTTTCACTGATCAGGTAGCCGGAGCTACCACTTTTC
1 TTCACTGATAAGGTAGCCGGAACTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTC
7870810 ACTGATCAGGTAGCT
66 ACTGATCAGGTAGCT
* *
7870825 TTCACTGATCAA-GTAGCCGGAACTGCCACTTTTCACTGATCAGGTAGCAGAAGCTACCATTTTT
1 TTCACTGAT-AAGGTAGCCGGAACTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTT
7870889 CACTGATCAGGTAGCT
65 CACTGATCAGGTAGCT
7870905 T
1 T
7870906 CAGCTACCAC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
80 72 0.97
81 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (80 bp):
TTCACTGATAAGGTAGCCGGAACTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTC
ACTGATCAGGTAGCT
Found at i:7870862 original size:31 final size:32
Alignment explanation
Indices: 7870824--7870923 Score: 116
Period size: 31 Copynumber: 3.2 Consensus size: 32
7870814 ATCAGGTAGC
* * *
7870824 TTTCACTGATCAAGTAGCCGGAA-CTGCCACT
1 TTTCACTGATCAGGTAGCCAGAAGCTACCACT
*
7870855 TTTCACTGATCAGGTAG-CAGAAGCTACCATT
1 TTTCACTGATCAGGTAGCCAGAAGCTACCACT
***
7870886 TTTCACTGATCAGGTAG-CTTCAGCTACCACT
1 TTTCACTGATCAGGTAGCCAGAAGCTACCACT
7870917 TTTCACT
1 TTTCACT
7870924 TGTCATTTGT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
30 4 0.07
31 56 0.93
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (32 bp):
TTTCACTGATCAGGTAGCCAGAAGCTACCACT
Found at i:7871001 original size:50 final size:51
Alignment explanation
Indices: 7870907--7871027 Score: 181
Period size: 50 Copynumber: 2.4 Consensus size: 51
7870897 AGGTAGCTTC
* *
7870907 AGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCGA
1 AGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCGA
* * *
7870958 AGCTATCACTTATCACTT-TCATTTTTCCTTGATCGGATAAGTGTAGCCGA
1 AGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCGA
*
7871008 AGTTATCACTTATCACTTGT
1 AGCTATCACTTATCACTTGT
7871028 TGCCATGGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 46 0.73
51 17 0.27
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (51 bp):
AGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCGA
Found at i:7871285 original size:27 final size:26
Alignment explanation
Indices: 7871241--7871292 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
7871231 CTCACTGCAA
*
7871241 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
7871268 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
7871293 GCAGCCTCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:7871730 original size:42 final size:42
Alignment explanation
Indices: 7871671--7871754 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
7871661 GATTCGAATG
7871671 ATGTCTTAATTTGTTTCTATTGAAAATAAACTCATTCAGGAT
1 ATGTCTTAATTTGTTTCTATTGAAAATAAACTCATTCAGGAT
7871713 ATGTCTTAATTTGTTTCTATTGAAAATAAACTCATTCAGGAT
1 ATGTCTTAATTTGTTTCTATTGAAAATAAACTCATTCAGGAT
7871755 TCTAAACATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (42 bp):
ATGTCTTAATTTGTTTCTATTGAAAATAAACTCATTCAGGAT
Found at i:7877318 original size:45 final size:46
Alignment explanation
Indices: 7877264--7877364 Score: 134
Period size: 46 Copynumber: 2.2 Consensus size: 46
7877254 TATTTCTAAT
7877264 AATTATTTGAAATATT-TCACATATAAA-AATAATAATATTTGAAAC
1 AATTATTTGAAATATTAT-ACATATAAATAATAATAATATTTGAAAC
* * * * *
7877309 AATTTTTTGAAATATTATATATATAAATAATAGTGATATTTGAAAT
1 AATTATTTGAAATATTATACATATAAATAATAATAATATTTGAAAC
7877355 AATTATTTGA
1 AATTATTTGA
7877365 TTTTATAATG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
45 23 0.48
46 25 0.52
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.43
Consensus pattern (46 bp):
AATTATTTGAAATATTATACATATAAATAATAATAATATTTGAAAC
Found at i:7888433 original size:21 final size:22
Alignment explanation
Indices: 7888404--7888450 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
7888394 CAGAAGGAGT
*
7888404 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
7888426 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
7888447 GAGT
1 GAGT
7888451 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:7889392 original size:20 final size:21
Alignment explanation
Indices: 7889369--7889413 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
7889359 TTATTTTGTG
7889369 TAAAAAAAATTTT-ATCAATA
1 TAAAAAAAATTTTAATCAATA
* *
7889389 TAAATAATATTTTAAATCAATA
1 TAAAAAAAATTTT-AATCAATA
7889411 TAA
1 TAA
7889414 TATAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
22 10 0.48
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAAAAAATTTTAATCAATA
Found at i:7893442 original size:11 final size:11
Alignment explanation
Indices: 7893428--7893491 Score: 53
Period size: 11 Copynumber: 5.8 Consensus size: 11
7893418 TATTTTTTAT
7893428 TTAAAAATAAA
1 TTAAAAATAAA
7893439 TTAAAAATAAA
1 TTAAAAATAAA
* *
7893450 ATACATCAAATAGA
1 TTA-A--AAATAAA
*
7893464 CTAAAAAT--A
1 TTAAAAATAAA
7893473 TT-AAAATAAA
1 TTAAAAATAAA
7893483 TTAAAAATA
1 TTAAAAATA
7893492 TGTTTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
8 5 0.12
9 2 0.05
10 3 0.07
11 23 0.53
12 1 0.02
13 1 0.02
14 8 0.19
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (11 bp):
TTAAAAATAAA
Found at i:7894511 original size:15 final size:15
Alignment explanation
Indices: 7894493--7894522 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7894483 TTTTGATGTC
*
7894493 TTAAATTTTTTTTAT
1 TTAAATTATTTTTAT
7894508 TTAAATTATTTTTAT
1 TTAAATTATTTTTAT
7894523 ACATTTTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTAAATTATTTTTAT
Found at i:7895593 original size:12 final size:12
Alignment explanation
Indices: 7895571--7895601 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
7895561 TAGGGTAGGA
7895571 AAAAGAAGAAAAT
1 AAAA-AAGAAAAT
7895584 AAAAAAGAAAAT
1 AAAAAAGAAAAT
7895596 AAAAAA
1 AAAAAA
7895602 AAGGAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (12 bp):
AAAAAAGAAAAT
Found at i:7899251 original size:16 final size:17
Alignment explanation
Indices: 7899226--7899257 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7899216 ATTTTTTAAA
7899226 AAAAATTATAATTTTTT
1 AAAAATTATAATTTTTT
7899243 AAAAA-TATAATTTTT
1 AAAAATTATAATTTTT
7899258 ATAATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAAAATTATAATTTTTT
Found at i:7899284 original size:19 final size:21
Alignment explanation
Indices: 7899238--7899305 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 21
7899228 AAATTATAAT
*
7899238 TTTTTAAAAATATAATTTTTATAA
1 TTTTTAAAAAT-T-ATTTTGA-AA
*
7899262 TTTTTATAAA-TATTTTG-AA
1 TTTTTAAAAATTATTTTGAAA
7899281 -TTTTAAAAATTATTTTGAAA
1 TTTTTAAAAATTATTTTGAAA
7899301 TTTTT
1 TTTTT
7899306 GTTGAGAGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 8 0.21
19 9 0.24
20 2 0.05
21 9 0.24
22 1 0.03
24 9 0.24
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTTTAAAAATTATTTTGAAA
Found at i:7902040 original size:17 final size:17
Alignment explanation
Indices: 7902018--7902050 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7902008 TGATTACCTC
*
7902018 CTTTTTTTTTTCTTTTT
1 CTTTTTTTTATCTTTTT
7902035 CTTTTTTTTATCTTTT
1 CTTTTTTTTATCTTTT
7902051 GGGTATGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (17 bp):
CTTTTTTTTATCTTTTT
Found at i:7903568 original size:15 final size:15
Alignment explanation
Indices: 7903548--7903578 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7903538 TATAATTTTA
7903548 TTATTTTAATAATTT
1 TTATTTTAATAATTT
*
7903563 TTATTTTTATAATTT
1 TTATTTTAATAATTT
7903578 T
1 T
7903579 AAAAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTTAATAATTT
Found at i:7903614 original size:30 final size:32
Alignment explanation
Indices: 7903564--7903637 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 32
7903554 TAATAATTTT
* *
7903564 TATTTTTATAATTTTAAAAAAATTAAAT-TAA
1 TATTATTATTATTTTAAAAAAATTAAATATAA
* *
7903595 -ATTATTATTATTTTTAAAAATTTAAATATAA
1 TATTATTATTATTTTAAAAAAATTAAATATAA
*
7903626 TTTTATTATTAT
1 TATTATTATTAT
7903638 CAATTTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 23 0.64
31 3 0.08
32 10 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (32 bp):
TATTATTATTATTTTAAAAAAATTAAATATAA
Found at i:7903690 original size:82 final size:82
Alignment explanation
Indices: 7903535--7903690 Score: 174
Period size: 82 Copynumber: 1.9 Consensus size: 82
7903525 ACCATAGTAA
** * * * *
7903535 AAATATAATTTTATTATTTTAATAATTTTTATTTTTATAATTTTAAAAAAATTAAATTAAATTAT
1 AAATATAATTTTATTA-TTTAATAATTTAAAATTTTATAATTATAAAAAAATTAAATTAAATAAC
**
7903600 TATTATTTTTAAAAATTT
65 TACCATTTTTAAAAATTT
*
7903618 AAATATAATTTTATTA-TT-ATCAATTTAAAATTTTATAAATTATAAAAAATTTAAATTAAA-AA
1 AAATATAATTTTATTATTTAAT-AATTTAAAATTTTAT-AATTATAAAAAAATTAAATTAAATAA
7903680 GCTACCATTTT
64 -CTACCATTTT
7903691 AACAGTGGCT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
80 2 0.03
81 15 0.25
82 28 0.46
83 16 0.26
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.50
Consensus pattern (82 bp):
AAATATAATTTTATTATTTAATAATTTAAAATTTTATAATTATAAAAAAATTAAATTAAATAACT
ACCATTTTTAAAAATTT
Found at i:7911035 original size:97 final size:98
Alignment explanation
Indices: 7910850--7911047 Score: 240
Period size: 97 Copynumber: 2.0 Consensus size: 98
7910840 TTTTTCTCTA
* * * *
7910850 CCAACATTGCTATCTCTAATTTTTCTATTCTGAGTATAGTGCTAATTTTTCCATTGCTTAGTATT
1 CCAACATTGCTATCTCTAATTTTTCTATTCAGAGTACAATACTAATTTTTCCATTGCTTAGTATT
**
7910915 CTACTGTCCTGAACTCCCTTTGTGTCATTA-TG
66 CTACTGTCAAGAACTCCCTTTGTGTCATTATTG
** * *
7910947 CCAACATTTTTATCTCTGATTTTTCTATTCAGAGTACAATACTGATTTTTCCATTGCTTA-TATT
1 CCAACATTGCTATCTCTAATTTTTCTATTCAGAGTACAATACTAATTTTTCCATTGCTTAGTATT
* * *
7911011 CTATTAG-CAAGAACTCCTTGTTGTGTCTTTATTG
66 CTACT-GTCAAGAACTCCCT-TTGTGTCATTATTG
7911045 CCA
1 CCA
7911048 TATATACTAT
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
96 17 0.20
97 63 0.74
98 5 0.06
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (98 bp):
CCAACATTGCTATCTCTAATTTTTCTATTCAGAGTACAATACTAATTTTTCCATTGCTTAGTATT
CTACTGTCAAGAACTCCCTTTGTGTCATTATTG
Found at i:7916028 original size:18 final size:17
Alignment explanation
Indices: 7915988--7916031 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
7915978 AACCATTAAT
7915988 ATTT-TAAAAAAATAAA
1 ATTTATAAAAAAATAAA
7916004 A-TTATAAAAATAATAAA
1 ATTTATAAAAA-AATAAA
7916021 ATTTATAAAAA
1 ATTTATAAAAA
7916032 GAGATAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 2 0.08
16 7 0.28
17 7 0.28
18 9 0.36
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATTTATAAAAAAATAAA
Found at i:7916250 original size:14 final size:14
Alignment explanation
Indices: 7916231--7916260 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7916221 AAATTGTTTC
7916231 TTTCTCGTAATAGA
1 TTTCTCGTAATAGA
7916245 TTTCTCGTAATAGA
1 TTTCTCGTAATAGA
7916259 TT
1 TT
7916261 GGTGGACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (14 bp):
TTTCTCGTAATAGA
Found at i:7917553 original size:9 final size:9
Alignment explanation
Indices: 7917541--7917580 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
7917531 ATTTTCCTTT
7917541 TTTTTATAA
1 TTTTTATAA
*
7917550 TTTTTCTAA
1 TTTTTATAA
* *
7917559 ATTTTATTA
1 TTTTTATAA
7917568 TTTTTATAA
1 TTTTTATAA
7917577 TTTT
1 TTTT
7917581 AGAATGAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTATAA
Found at i:7920979 original size:51 final size:51
Alignment explanation
Indices: 7920897--7921016 Score: 197
Period size: 51 Copynumber: 2.4 Consensus size: 51
7920887 ACTTTTGATC
*
7920897 AGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
7920948 AGTGATAAGTGATAAGTGGTAGCTTCT-GCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTT-TAGCTACACTTATCTGATCAGTGACA
*
7920999 AGTGACAAGTGACAAGTG
1 AGTGACAAGTGATAAGTG
7921017 ATAAATGTGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 63 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:7921004 original size:7 final size:7
Alignment explanation
Indices: 7920992--7921017 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7920982 TTATCTGATC
7920992 AGTGACA
1 AGTGACA
7920999 AGTGACA
1 AGTGACA
7921006 AGTGACA
1 AGTGACA
7921013 AGTGA
1 AGTGA
7921018 TAAATGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.31, T:0.15
Consensus pattern (7 bp):
AGTGACA
Found at i:7927249 original size:37 final size:35
Alignment explanation
Indices: 7927208--7927292 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 35
7927198 AATGAGTAAA
* *
7927208 TTTTAAATTTTTATTATAATTTTAT-TAATTTTTCTAT
1 TTTTAAATTTTTAATA-AATTTTGTAT-ATTTTTC-AT
*
7927245 TTTTAATATTTGTAATAAATTTTGTATATTTTTCAT
1 TTTTAA-ATTTTTAATAAATTTTGTATATTTTTCAT
7927281 TTTTAAATTTTT
1 TTTTAAATTTTT
7927293 TTTTAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
35 5 0.12
36 8 0.19
37 20 0.48
38 9 0.21
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (35 bp):
TTTTAAATTTTTAATAAATTTTGTATATTTTTCAT
Found at i:7927823 original size:23 final size:22
Alignment explanation
Indices: 7927807--7927853 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
7927797 ATTTTTCAAT
7927807 AAAAATACATAAAATTTTATAA
1 AAAAATACATAAAATTTTATAA
* *
7927829 ATAAATACATACAATTTTATAA
1 AAAAATACATAAAATTTTATAA
7927851 AAA
1 AAA
7927854 TATTTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAAATACATAAAATTTTATAA
Found at i:7937183 original size:39 final size:39
Alignment explanation
Indices: 7937139--7937225 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
7937129 ATGCAAAATG
*
7937139 CATCAAATAAGTTTGGATAATAGCCTAAACACCCAACTT
1 CATCAAACAAGTTTGGATAATAGCCTAAACACCCAACTT
*
7937178 CATCAAACAAGTTTGGCTAATAGCCTAAACACCCAACTT
1 CATCAAACAAGTTTGGATAATAGCCTAAACACCCAACTT
7937217 CATCAAACA
1 CATCAAACA
7937226 TGTTAGTCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.23
Consensus pattern (39 bp):
CATCAAACAAGTTTGGATAATAGCCTAAACACCCAACTT
Found at i:7939230 original size:30 final size:28
Alignment explanation
Indices: 7939188--7939269 Score: 92
Period size: 30 Copynumber: 2.8 Consensus size: 28
7939178 TATTTTCTAT
*
7939188 TTTTATTTTAAAAAGTTTATTTTTTATAA
1 TTTTATTTTAAAAACTTTATTTTTTA-AA
*
7939217 TTTTATTTCTAAAAACTTGTTTTTTTTAAA
1 TTTTATTT-TAAAAACTT-TATTTTTTAAA
* * *
7939247 TGTTATTTTTAAAATTTTATTTT
1 TTTTATTTTAAAAACTTTATTTT
7939270 ATTTTTACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
28 5 0.11
29 15 0.33
30 17 0.38
31 8 0.18
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (28 bp):
TTTTATTTTAAAAACTTTATTTTTTAAA
Found at i:7940157 original size:16 final size:19
Alignment explanation
Indices: 7940126--7940165 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
7940116 CTAAAATTTT
7940126 AAAAATTATATATTTAA-A
1 AAAAATTATATATTTAATA
7940144 AAAAATTAT-T-TTTAATA
1 AAAAATTATATATTTAATA
7940161 AAAAA
1 AAAAA
7940166 GTTGGTCTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 7 0.33
18 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTATATATTTAATA
Found at i:7940512 original size:22 final size:22
Alignment explanation
Indices: 7940484--7940528 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
7940474 AAAAGTACTA
*
7940484 TGGCAAATTTATGGCATTCGGT
1 TGGCAAATTTATGGCATCCGGT
7940506 TGGCAAATTTATGGCATCCGGT
1 TGGCAAATTTATGGCATCCGGT
7940528 T
1 T
7940529 CAGGTTGTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.36
Consensus pattern (22 bp):
TGGCAAATTTATGGCATCCGGT
Found at i:7945585 original size:16 final size:15
Alignment explanation
Indices: 7945535--7945585 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
7945525 TTATATTTTC
7945535 AAAAAA-AAATTATTTT
1 AAAAAATAAA-TA-TTT
*
7945551 AAAAAATAAAAATTAT
1 AAAAAATAAATATT-T
7945567 AAAAAATAAACTATTT
1 AAAAAATAAA-TATTT
7945583 AAA
1 AAA
7945586 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 2 0.07
16 22 0.73
17 6 0.20
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAAATAAATATTT
Found at i:7945618 original size:24 final size:26
Alignment explanation
Indices: 7945557--7945620 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 26
7945547 TTTTAAAAAA
7945557 TAAAAATTATAAAA-AATAAACTATT
1 TAAAAATTATAAAATAATAAACTATT
** *
7945582 TAAATTTTTTAAAATAA-AAA-TATT
1 TAAAAATTATAAAATAATAAACTATT
*
7945606 TAAAAATTCTAAAAT
1 TAAAAATTATAAAAT
7945621 TTCGACATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 16 0.50
25 14 0.44
26 2 0.06
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (26 bp):
TAAAAATTATAAAATAATAAACTATT
Found at i:7949195 original size:17 final size:17
Alignment explanation
Indices: 7949169--7949203 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7949159 AATTTGAAAG
*
7949169 AAAAAGAAAGAACAAAA
1 AAAAAAAAAGAACAAAA
*
7949186 AAAAAAAAAGAAGAAAA
1 AAAAAAAAAGAACAAAA
7949203 A
1 A
7949204 GAAGGAGACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAACAAAA
Found at i:7953351 original size:21 final size:21
Alignment explanation
Indices: 7953325--7953368 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
7953315 TGGGGTGATT
7953325 TTGGATTGTTGTAAAAAGAAG
1 TTGGATTGTTGTAAAAAGAAG
7953346 TTGGATTGTTGTAAAAAGAAG
1 TTGGATTGTTGTAAAAAGAAG
7953367 TT
1 TT
7953369 TGTTGTTCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (21 bp):
TTGGATTGTTGTAAAAAGAAG
Found at i:7955973 original size:13 final size:14
Alignment explanation
Indices: 7955957--7955992 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
7955947 CAATCTCATA
7955957 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
7955970 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
7955983 TCTC-ATTTCA
1 TCTCAATTTCA
7955993 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:7955982 original size:18 final size:19
Alignment explanation
Indices: 7955944--7955984 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
7955934 TGGTTCATGT
7955944 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
7955963 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
7955981 TTTC
1 TTTC
7955985 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:7956174 original size:39 final size:38
Alignment explanation
Indices: 7956107--7956241 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
7956097 ACCAATATGG
* * *
7956107 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
7956146 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
7956184 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
7956225 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
7956242 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:7956507 original size:18 final size:19
Alignment explanation
Indices: 7956481--7956519 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
7956471 TTTCAATTCA
7956481 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
7956500 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
7956518 AT
1 AT
7956520 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:7957845 original size:5 final size:5
Alignment explanation
Indices: 7957835--7957887 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
7957825 TTACTTATTT
* *
7957835 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATCATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
7957883 ATATA
1 ATATA
7957888 TATTTTTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:7957851 original size:12 final size:12
Alignment explanation
Indices: 7957834--7957889 Score: 60
Period size: 12 Copynumber: 4.5 Consensus size: 12
7957824 TTTACTTATT
7957834 TATATAATATAA
1 TATATAATATAA
7957846 TATATAATATAATA
1 TATATAATAT-A-A
7957860 TACTATAATATAA
1 TA-TATAATATAA
* *
7957873 T-CATAATTTAA
1 TATATAATATAA
7957884 TATATA
1 TATATA
7957890 TTTTTTAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 9 0.24
12 13 0.35
13 3 0.08
14 4 0.11
15 8 0.22
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:7962713 original size:17 final size:18
Alignment explanation
Indices: 7962691--7962724 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
7962681 TCTATTGAGT
7962691 CGTGTGGG-CCACATGGA
1 CGTGTGGGCCCACATGGA
7962708 CGTGTGGGCCCACATGG
1 CGTGTGGGCCCACATGG
7962725 GTCAACCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.15, C:0.26, G:0.41, T:0.18
Consensus pattern (18 bp):
CGTGTGGGCCCACATGGA
Found at i:7965963 original size:22 final size:21
Alignment explanation
Indices: 7965938--7965991 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
7965928 GTTCATGTAA
7965938 TTAAATTGTATATTTATATGTT
1 TTAAATTGTATA-TTATATGTT
*
7965960 TTAAATTG-A-ATTATTTGTT
1 TTAAATTGTATATTATATGTT
*
7965979 TCTGAATTGTATA
1 T-TAAATTGTATA
7965992 ATTTCCATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 9 0.33
20 7 0.26
21 2 0.07
22 9 0.33
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (21 bp):
TTAAATTGTATATTATATGTT
Found at i:7973886 original size:23 final size:22
Alignment explanation
Indices: 7973838--7973900 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
7973828 CTTCATGCGC
* * *
7973838 GCAAGTGACAATAGCAGTCTCGT
1 GCAAGTGACAGTGGCA-CCTCGT
7973861 GCAAGTGACAGTGGCACCTCGAT
1 GCAAGTGACAGTGGCACCTCG-T
*
7973884 GCAAGTGATAGTGGCAC
1 GCAAGTGACAGTGGCAC
7973901 TTTGGTGTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 4 0.11
23 31 0.89
ACGTcount: A:0.29, C:0.22, G:0.30, T:0.19
Consensus pattern (22 bp):
GCAAGTGACAGTGGCACCTCGT
Found at i:7994183 original size:5 final size:5
Alignment explanation
Indices: 7994159--7994193 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
7994149 CTTTTGTTTT
7994159 ATATA TATATA ATAATA ATATA ATATA ATATA ATA
1 ATATA -ATATA AT-ATA ATATA ATATA ATATA ATA
7994194 ACATACTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:7996208 original size:3 final size:3
Alignment explanation
Indices: 7996200--7996224 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7996190 ATATGCAAAC
7996200 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
7996225 GTTTTGTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:7997064 original size:19 final size:20
Alignment explanation
Indices: 7997033--7997077 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
7997023 CGGAAAATAA
7997033 TTTCTGAAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
7997053 TTTCTG-AAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
7997072 TTTCTG
1 TTTCTG
7997078 GTGTTTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:7997180 original size:18 final size:18
Alignment explanation
Indices: 7997154--7997196 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
7997144 AAAAGTTATT
*
7997154 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
7997172 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
7997190 TTTATAT
1 TTTATAT
7997197 TTTAAATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:8004474 original size:24 final size:24
Alignment explanation
Indices: 8004445--8004495 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
8004435 ATTCAAATTG
* *
8004445 CTACTAACAAGCTAACAACTCCTC
1 CTACTAACAAGCTAACAAATCCCC
8004469 CTACTAACAAGCTAACAAATCCCC
1 CTACTAACAAGCTAACAAATCCCC
8004493 CTA
1 CTA
8004496 AGACTTAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.37, G:0.04, T:0.20
Consensus pattern (24 bp):
CTACTAACAAGCTAACAAATCCCC
Found at i:8004538 original size:26 final size:26
Alignment explanation
Indices: 8004502--8004555 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
8004492 CCTAAGACTT
*
8004502 AGTCTTATTATTTTAAAAATAGTTGC
1 AGTCTTATTATTTTAAAAATAGCTGC
8004528 AGTCTTATTATTTTAAAAATAGCTGC
1 AGTCTTATTATTTTAAAAATAGCTGC
8004554 AG
1 AG
8004556 CCTTGAGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (26 bp):
AGTCTTATTATTTTAAAAATAGCTGC
Found at i:8007070 original size:23 final size:24
Alignment explanation
Indices: 8007039--8007089 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
8007029 CAAAGGTATG
8007039 TATAAGAT-ATAGGTATATATATA
1 TATAAGATAATAGGTATATATATA
* *
8007062 TATATGATAGATATGTATATATATA
1 TATAAGATA-ATAGGTATATATATA
8007087 TAT
1 TAT
8007090 GTTGCATTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.29
25 17 0.71
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (24 bp):
TATAAGATAATAGGTATATATATA
Found at i:8007134 original size:33 final size:32
Alignment explanation
Indices: 8007078--8007141 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
8007068 ATAGATATGT
8007078 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
8007110 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
8007142 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:8007158 original size:33 final size:33
Alignment explanation
Indices: 8007085--8007158 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
8007075 TGTATATATA
* * **
8007085 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
8007117 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
8007150 TGTATGTAT
1 TATATGTAT
8007159 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:8009117 original size:26 final size:26
Alignment explanation
Indices: 8009081--8009134 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
8009071 CCTAAGACTT
8009081 AGTCTTATTATTTTAAAAATAGCCGC
1 AGTCTTATTATTTTAAAAATAGCCGC
*
8009107 AGTCTTATTATTTTAAAAATAGCTGC
1 AGTCTTATTATTTTAAAAATAGCCGC
8009133 AG
1 AG
8009135 CCTTGAGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (26 bp):
AGTCTTATTATTTTAAAAATAGCCGC
Found at i:8009582 original size:6 final size:6
Alignment explanation
Indices: 8009571--8009596 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8009561 GCATGAGATA
8009571 GGGCAG GGGCAG GGGCAG GGGCAG GG
1 GGGCAG GGGCAG GGGCAG GGGCAG GG
8009597 ACTGAAGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.69, T:0.00
Consensus pattern (6 bp):
GGGCAG
Found at i:8025556 original size:4 final size:4
Alignment explanation
Indices: 8025549--8025577 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
8025539 AATGTTTTAA
8025549 AATT AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT AATT A
8025578 TAATAACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:8030131 original size:21 final size:21
Alignment explanation
Indices: 8030097--8030140 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
8030087 AAATCTCTAC
*
8030097 AATTTCTCCCTAAAGCTCTCA
1 AATTTCTCACTAAAGCTCTCA
* **
8030118 AATTTCTCATTAAATTTCTCA
1 AATTTCTCACTAAAGCTCTCA
8030139 AA
1 AA
8030141 GCTCATTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCTCACTAAAGCTCTCA
Found at i:8030381 original size:19 final size:18
Alignment explanation
Indices: 8030295--8030381 Score: 58
Period size: 18 Copynumber: 4.8 Consensus size: 18
8030285 ATGATAACGG
8030295 TTTATTTTAA-ATTTTGAA
1 TTTA-TTTAATATTTTGAA
**
8030313 TATTATTTAATATTTTTTCA
1 T-TTATTTAATA-TTTTGAA
*
8030333 TTTATGT-A-ATTTT-AA
1 TTTATTTAATATTTTGAA
*
8030348 TTAATTTTAAT-TTTTGAA
1 TTTA-TTTAATATTTTGAA
8030366 TATTATTTAATATTTT
1 T-TTATTTAATATTTT
8030382 TTCATTTATA
Statistics
Matches: 53, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
15 4 0.08
16 6 0.11
17 6 0.11
18 16 0.30
19 15 0.28
20 6 0.11
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTATTTAATATTTTGAA
Found at i:8030390 original size:19 final size:19
Alignment explanation
Indices: 8030315--8030395 Score: 55
Period size: 19 Copynumber: 4.5 Consensus size: 19
8030305 ATTTTGAATA
*
8030315 TTATTTAATATTTTTTCAT
1 TTATTTAATATTTTTTAAT
*
8030334 TTATGT-A-A--TTTTAAT
1 TTATTTAATATTTTTTAAT
* * *
8030349 TAATTTTA-ATTTTTGAAT
1 TTATTTAATATTTTTTAAT
*
8030367 ATTATTTAATATTTTTTCAT
1 -TTATTTAATATTTTTTAAT
*
8030387 TTATATAAT
1 TTATTTAAT
8030396 TTTAATTAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
15 10 0.21
16 2 0.04
17 1 0.02
18 7 0.15
19 19 0.40
20 8 0.17
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TTATTTAATATTTTTTAAT
Found at i:8030407 original size:19 final size:19
Alignment explanation
Indices: 8030332--8030407 Score: 56
Period size: 19 Copynumber: 4.2 Consensus size: 19
8030322 ATATTTTTTC
*
8030332 ATTTATGTAATTTTAATTA
1 ATTTATATAATTTTAATTA
* *
8030351 ATTT-TA-ATTTTTGAATATT
1 ATTTATATAATTTT-AAT-TA
*
8030370 ATTTA-AT-ATTTT--TTC
1 ATTTATATAATTTTAATTA
8030385 ATTTATATAATTTTAATTA
1 ATTTATATAATTTTAATTA
8030404 ATTT
1 ATTT
8030408 GTATTTTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
15 6 0.14
16 3 0.07
17 10 0.23
18 4 0.09
19 20 0.47
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (19 bp):
ATTTATATAATTTTAATTA
Found at i:8030414 original size:53 final size:53
Alignment explanation
Indices: 8030298--8030407 Score: 202
Period size: 53 Copynumber: 2.1 Consensus size: 53
8030288 ATAACGGTTT
* *
8030298 ATTTTAAATTTTGAATATTATTTAATATTTTTTCATTTATGTAATTTTAATTA
1 ATTTTAATTTTTGAATATTATTTAATATTTTTTCATTTATATAATTTTAATTA
8030351 ATTTTAATTTTTGAATATTATTTAATATTTTTTCATTTATATAATTTTAATTA
1 ATTTTAATTTTTGAATATTATTTAATATTTTTTCATTTATATAATTTTAATTA
8030404 ATTT
1 ATTT
8030408 GTATTTTATA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (53 bp):
ATTTTAATTTTTGAATATTATTTAATATTTTTTCATTTATATAATTTTAATTA
Found at i:8032222 original size:21 final size:21
Alignment explanation
Indices: 8032172--8032223 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
8032162 AACACCCAGA
*
8032172 ACCAGAGCAACCACAACCTCC
1 ACCAGAGCAACCACAACCCCC
*
8032193 GCC-GAAGCAACCACAACCCCC
1 ACCAG-AGCAACCACAACCCCC
8032214 ACCAGAGCAA
1 ACCAGAGCAA
8032224 AGAAGGAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.38, C:0.46, G:0.13, T:0.02
Consensus pattern (21 bp):
ACCAGAGCAACCACAACCCCC
Found at i:8035739 original size:126 final size:126
Alignment explanation
Indices: 8035403--8035899 Score: 558
Period size: 126 Copynumber: 4.0 Consensus size: 126
8035393 GGTCAATTAT
* * * * * *** *
8035403 GAACTACTGTAGAAAAAAAACGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTGACATTGCATC
1 GAACTACTATTGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
* *
8035468 CTGCTTGAAGCATCTTTGACACTGTTTGTTCAGAAACATCTTCTCAAAATTA--TTTT-AG
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * *
8035526 GAACTACTATTGAAAAAGAACGTTCACGTAGGAGC-TTTTTCTATAAATTTGCTGACAGTGCATC
1 GAACTACTATTGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
* ** * *
8035590 CTGCTTAAATTATTTTTGACACTATTTTTTCAGAAACATCTTCTCAAAATTATTTTTTCAT
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * * * * *
8035651 GAACTACTATTGAAAAAGAGCATCCATGT-GGTAACTTTTTTCCGTAATTTTACTTACAGTGAAT
1 GAACTACTATTGAAAAAGAGCGTCCACGTAGG-AGCTTTTTTCTGTAATTTTGCTGACAGTGCAT
* * * *
8035715 TCTGCTTGAAGCGTTTTTGACACTAATTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
65 CCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * * *
8035777 GAACTACTGTAGAAAAAGAGTGCCCACGTAGGAGCTTTTTT-TGTATTTTTGCTGACAGTGCATC
1 GAACTACTATTGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
* ** * * *
8035841 CTGTTTGAAGTGTTTTT-ATACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCA
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCA
8035900 AGGTAAAAAT
Statistics
Matches: 314, Mismatches: 54, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
122 71 0.23
123 30 0.10
124 45 0.14
125 60 0.19
126 106 0.34
127 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (126 bp):
GAACTACTATTGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
Found at i:8035992 original size:28 final size:30
Alignment explanation
Indices: 8035961--8036033 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
8035951 AAAAACTAAG
*
8035961 CCCTAATTTAATTAAATTT-AACCTTA-AA
1 CCCTAATTTAATTAAATTTAAACCCTAGAA
*
8035989 CCCTAATTTAATT-TATTTAAAACCCTAGAA
1 CCCTAATTTAATTAAATTT-AAACCCTAGAA
*
8036019 CCCTAATTTACTTAA
1 CCCTAATTTAATTAA
8036034 TTTTTTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 4 0.11
28 13 0.35
29 6 0.16
30 14 0.38
ACGTcount: A:0.40, C:0.21, G:0.01, T:0.38
Consensus pattern (30 bp):
CCCTAATTTAATTAAATTTAAACCCTAGAA
Found at i:8036023 original size:30 final size:28
Alignment explanation
Indices: 8035956--8036033 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 28
8035946 TTTAAAAAAA
*
8035956 CTAAGCCCTAATTTAATTAAATTTAACC
1 CTAAACCCTAATTTAATTAAATTTAACC
* *
8035984 TTAAACCCTAATTTAATT-TATTTAAAACC
1 CTAAACCCTAATTTAATTAAATTT--AACC
*
8036013 CTAGAACCCTAATTTACTTAA
1 CTA-AACCCTAATTTAATTAA
8036034 TTTTTTTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
27 4 0.10
28 16 0.40
29 6 0.15
30 14 0.35
ACGTcount: A:0.40, C:0.21, G:0.03, T:0.37
Consensus pattern (28 bp):
CTAAACCCTAATTTAATTAAATTTAACC
Found at i:8036079 original size:7 final size:7
Alignment explanation
Indices: 8036043--8036075 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
8036033 ATTTTTTTAA
8036043 AAACCAT
1 AAACCAT
8036050 AAACCAT
1 AAACCAT
8036057 AAACCAT
1 AAACCAT
*
8036064 AAACCCT
1 AAACCAT
8036071 AAACC
1 AAACC
8036076 CTAATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.55, C:0.33, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCAT
Found at i:8036101 original size:18 final size:18
Alignment explanation
Indices: 8036071--8036115 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
8036061 CATAAACCCT
8036071 AAACCCT-AATTTATTTA
1 AAACCCTAAATTTATTTA
8036088 AAACCCTAAATTTATTTA
1 AAACCCTAAATTTATTTA
*
8036106 AAATCCTAAA
1 AAACCCTAAA
8036116 AACCCTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.36
Consensus pattern (18 bp):
AAACCCTAAATTTATTTA
Found at i:8036142 original size:27 final size:28
Alignment explanation
Indices: 8036077--8036151 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 28
8036067 CCCTAAACCC
*
8036077 TAATTTATTT-AAAACCCTAAATTTATT
1 TAATTTATTTAAAAACCCTAAATTTACT
* *
8036104 TAA--AATCCTAAAAACCCT-AATTTACT
1 TAATTTAT-TTAAAAACCCTAAATTTACT
*
8036130 TAATTTATTTAAAAACCATAAA
1 TAATTTATTTAAAAACCCTAAA
8036152 CCCTAATGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
25 2 0.05
26 11 0.30
27 20 0.54
28 4 0.11
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.39
Consensus pattern (28 bp):
TAATTTATTTAAAAACCCTAAATTTACT
Found at i:8036985 original size:12 final size:12
Alignment explanation
Indices: 8036968--8036993 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8036958 GTAAAAAGGA
8036968 AACAAATAGATG
1 AACAAATAGATG
8036980 AACAAATAGATG
1 AACAAATAGATG
8036992 AA
1 AA
8036994 TAAGCAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.08, G:0.15, T:0.15
Consensus pattern (12 bp):
AACAAATAGATG
Found at i:8037463 original size:13 final size:12
Alignment explanation
Indices: 8037445--8037502 Score: 73
Period size: 13 Copynumber: 4.7 Consensus size: 12
8037435 AAAAATGATA
8037445 AAATAAATCAAAC
1 AAATAAAT-AAAC
8037458 AAATAACATAAA-
1 AAATAA-ATAAAC
*
8037470 AAATAAACAAAC
1 AAATAAATAAAC
8037482 AAATAAATAAGAC
1 AAATAAATAA-AC
8037495 AAATAAAT
1 AAATAAAT
8037503 GATTCTAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
11 4 0.10
12 15 0.38
13 19 0.47
14 2 0.05
ACGTcount: A:0.72, C:0.10, G:0.02, T:0.16
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:8038861 original size:22 final size:21
Alignment explanation
Indices: 8038808--8038863 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
8038798 GCCTTTTCTG
*
8038808 TATTTGGGTTAAGGTTGGGTT
1 TATTTGGGTCAAGGTTGGGTT
* * *
8038829 AATTTTAGGTCAGGGTTTGGGTT
1 TA-TTTGGGTCAAGG-TTGGGTT
8038852 TATTTGGGTCAA
1 TATTTGGGTCAA
8038864 AGTTTGTTTG
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
21 1 0.04
22 17 0.65
23 8 0.31
ACGTcount: A:0.18, C:0.04, G:0.34, T:0.45
Consensus pattern (21 bp):
TATTTGGGTCAAGGTTGGGTT
Found at i:8039887 original size:23 final size:24
Alignment explanation
Indices: 8039859--8039903 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
8039849 TTTATTGAAA
*
8039859 TTAATTAATTGATT-ATTTTATAT
1 TTAATTAATTAATTAATTTTATAT
8039882 TTAATTAATTAATTAATTTTAT
1 TTAATTAATTAATTAATTTTAT
8039904 TGAGTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
TTAATTAATTAATTAATTTTATAT
Done.