Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 55 of 135
Found at i:15516651 original size:21 final size:21
Alignment explanation
Indices: 15516624--15516671 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
15516614 AGCAAGCTGA
15516624 AGAAGAAGAAGAAGAAGACCC
1 AGAAGAAGAAGAAGAAGACCC
* *
15516645 TGAAGAAGAAGAAGAAGATCC
1 AGAAGAAGAAGAAGAAGACCC
15516666 AGAAGA
1 AGAAGA
15516672 GGATGCTGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.29, T:0.04
Consensus pattern (21 bp):
AGAAGAAGAAGAAGAAGACCC
Found at i:15521017 original size:14 final size:15
Alignment explanation
Indices: 15520980--15521020 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
15520970 TTTGGAACGG
15520980 GAAAAGTAAATGCTAA
1 GAAAA-TAAATGCTAA
15520996 -AAACATAAATGC-AA
1 GAAA-ATAAATGCTAA
15521010 GAAAATAAATG
1 GAAAATAAATG
15521021 GTAAACAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 9 0.39
15 13 0.57
16 1 0.04
ACGTcount: A:0.61, C:0.07, G:0.15, T:0.17
Consensus pattern (15 bp):
GAAAATAAATGCTAA
Found at i:15531447 original size:34 final size:35
Alignment explanation
Indices: 15531347--15531463 Score: 125
Period size: 34 Copynumber: 3.4 Consensus size: 35
15531337 GTTTACAAGT
* * *
15531347 TATGGTGTGTTGGAT-GGATTAGCTCTTATGAGCA
1 TATGGTGTGTTGGTTCGAAGTAGCTCTTATGAGCA
* *
15531381 TATGGTGTGGTGG-ACGAAGTAGCTCTTATGAGCA
1 TATGGTGTGTTGGTTCGAAGTAGCTCTTATGAGCA
* *
15531415 TATGGTTTGTTGGTTCGAA-TGGCTCATT-TGAGCA
1 TATGGTGTGTTGGTTCGAAGTAGCTC-TTATGAGCA
*
15531449 TTTGGTGTGTTGGTT
1 TATGGTGTGTTGGTT
15531464 GGTTAACAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
34 64 0.91
35 6 0.09
ACGTcount: A:0.18, C:0.09, G:0.33, T:0.39
Consensus pattern (35 bp):
TATGGTGTGTTGGTTCGAAGTAGCTCTTATGAGCA
Found at i:15532430 original size:21 final size:21
Alignment explanation
Indices: 15532406--15532445 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
15532396 TGAGCACATG
15532406 GGCATGTGGGA-AGGCCACACA
1 GGCATGTGGGAGA-GCCACACA
15532427 GGCATGTGGGAGAGCCACA
1 GGCATGTGGGAGAGCCACA
15532446 TGGCTGTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.28, C:0.23, G:0.40, T:0.10
Consensus pattern (21 bp):
GGCATGTGGGAGAGCCACACA
Found at i:15537121 original size:27 final size:30
Alignment explanation
Indices: 15537080--15537137 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 30
15537070 GAATTTTTTG
*
15537080 TAAAATTTAGTTG-TTAATTTTGT-AATAT
1 TAAAATTTAGCTGTTTAATTTTGTAAATAT
*
15537108 TAAAA-TTAGCTGTTTATTTTTGTAAATAT
1 TAAAATTTAGCTGTTTAATTTTGTAAATAT
15537137 T
1 T
15537138 TTAAAACAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 6 0.23
28 14 0.54
29 6 0.23
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.53
Consensus pattern (30 bp):
TAAAATTTAGCTGTTTAATTTTGTAAATAT
Found at i:15537183 original size:18 final size:17
Alignment explanation
Indices: 15537151--15537186 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
15537141 AAACAGCTAA
15537151 AAATAATTTTTTTATTT
1 AAATAATTTTTTTATTT
*
15537168 AAATTATTTATTTTATTT
1 AAATAATTT-TTTTATTT
15537186 A
1 A
15537187 TTTTTCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AAATAATTTTTTTATTT
Found at i:15538949 original size:18 final size:18
Alignment explanation
Indices: 15538926--15538962 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15538916 AAGAAGATCC
* *
15538926 AGAAGAGGATGCTGAGGA
1 AGAAGAAGATCCTGAGGA
15538944 AGAAGAAGATCCTGAGGA
1 AGAAGAAGATCCTGAGGA
15538962 A
1 A
15538963 AATCCTGTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.08, G:0.38, T:0.11
Consensus pattern (18 bp):
AGAAGAAGATCCTGAGGA
Found at i:15543272 original size:14 final size:15
Alignment explanation
Indices: 15543235--15543275 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
15543225 TTTGGAACGG
15543235 GAAAAGTAAATGCTAA
1 GAAAA-TAAATGCTAA
15543251 -AAACATAAATGC-AA
1 GAAA-ATAAATGCTAA
15543265 GAAAATAAATG
1 GAAAATAAATG
15543276 GTAAACAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 9 0.39
15 13 0.57
16 1 0.04
ACGTcount: A:0.61, C:0.07, G:0.15, T:0.17
Consensus pattern (15 bp):
GAAAATAAATGCTAA
Found at i:15554693 original size:21 final size:21
Alignment explanation
Indices: 15554667--15554706 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
15554657 TGAGAACATG
15554667 GGCATGTGGGA-AGGCCACACA
1 GGCATGTGGGAGA-GCCACACA
15554688 GGCATGTGGGAGAGCCACA
1 GGCATGTGGGAGAGCCACA
15554707 TGGCTGTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.28, C:0.23, G:0.40, T:0.10
Consensus pattern (21 bp):
GGCATGTGGGAGAGCCACACA
Found at i:15559992 original size:55 final size:55
Alignment explanation
Indices: 15559925--15560028 Score: 172
Period size: 55 Copynumber: 1.9 Consensus size: 55
15559915 TTTCTTTCTC
* *
15559925 GGTTTGGGTTGACCGGCTGGTCTTATTTATGCCCATTTTCCCTCTTTTTCTCTTG
1 GGTTTGGGTTGACCAGCTGGTCTTATTTATGCCCATTTTCCCCCTTTTTCTCTTG
* *
15559980 GGTTTGGGTTGACTAGCTGGTCTTATTTGTGCCCATTTTCCCCCTTTTT
1 GGTTTGGGTTGACCAGCTGGTCTTATTTATGCCCATTTTCCCCCTTTTT
15560029 GTTTCTCTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.08, C:0.23, G:0.22, T:0.47
Consensus pattern (55 bp):
GGTTTGGGTTGACCAGCTGGTCTTATTTATGCCCATTTTCCCCCTTTTTCTCTTG
Found at i:15565629 original size:30 final size:29
Alignment explanation
Indices: 15565595--15565652 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
15565585 AATGTTTAGA
15565595 AATTAAATAAATAAGACAAAAT-AAATAAAC
1 AATTAAATAAAT-AGA-AAAATAAAATAAAC
* *
15565625 AATTATATAAATCGAAAAATAAAATAAA
1 AATTAAATAAATAGAAAAATAAAATAAA
15565653 AATAGGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.20
29 9 0.36
30 11 0.44
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.22
Consensus pattern (29 bp):
AATTAAATAAATAGAAAAATAAAATAAAC
Found at i:15567771 original size:24 final size:23
Alignment explanation
Indices: 15567743--15567788 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
15567733 TTTTGGAGAA
15567743 TTTTGTGTTT-ACGTTTTGAGGGTC
1 TTTTGTGTTTGA-GTTTTG-GGGTC
*
15567767 TTTTGTTTTTGAGTTTTGGGGT
1 TTTTGTGTTTGAGTTTTGGGGT
15567789 TTTGTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 15 0.75
25 1 0.05
ACGTcount: A:0.07, C:0.04, G:0.30, T:0.59
Consensus pattern (23 bp):
TTTTGTGTTTGAGTTTTGGGGTC
Found at i:15572437 original size:18 final size:18
Alignment explanation
Indices: 15572403--15572436 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
15572393 TACATGTGTA
15572403 TATATATTTTTTCTTTTC
1 TATATATTTTTTCTTTTC
15572421 TATAT-TTTTTTCTTTT
1 TATATATTTTTTCTTTT
15572437 TTTAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (18 bp):
TATATATTTTTTCTTTTC
Found at i:15574970 original size:13 final size:14
Alignment explanation
Indices: 15574940--15574971 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
15574930 ACTGGTGGTG
15574940 GAAAAGGGGAAATA
1 GAAAAGGGGAAATA
15574954 -AAAAGGGGAAA-A
1 GAAAAGGGGAAATA
15574966 GAAAAG
1 GAAAAG
15574972 AAAATGGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.06
13 16 0.94
ACGTcount: A:0.62, C:0.00, G:0.34, T:0.03
Consensus pattern (14 bp):
GAAAAGGGGAAATA
Found at i:15575193 original size:17 final size:17
Alignment explanation
Indices: 15575171--15575227 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
15575161 TACGACAATT
15575171 CATTTATATATTTCCTG
1 CATTTATATATTTCCTG
* * **
15575188 CATTTAAATTTTTATGTG
1 CATTTATATATTT-CCTG
*
15575206 AATTT-TATATTTCCTG
1 CATTTATATATTTCCTG
15575222 CATTTA
1 CATTTA
15575228 AATTTTAGTA
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
16 6 0.21
17 16 0.57
18 6 0.21
ACGTcount: A:0.26, C:0.12, G:0.07, T:0.54
Consensus pattern (17 bp):
CATTTATATATTTCCTG
Found at i:15575481 original size:43 final size:43
Alignment explanation
Indices: 15575420--15575508 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
15575410 GAGCATCGAG
15575420 AACCATTTCCTTGTGGGATCGATATCCAATACCTCTATCTATC
1 AACCATTTCCTTGTGGGATCGATATCCAATACCTCTATCTATC
*
15575463 AACCATTTCCTTGTGGGATCGATATCCAATAGCTCTATCTATC
1 AACCATTTCCTTGTGGGATCGATATCCAATACCTCTATCTATC
15575506 AAC
1 AAC
15575509 TATACTTGCA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (43 bp):
AACCATTTCCTTGTGGGATCGATATCCAATACCTCTATCTATC
Found at i:15576613 original size:35 final size:35
Alignment explanation
Indices: 15576545--15576614 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
15576535 CGGTTTCTCA
* *
15576545 TTCTGCACAGGTGAAAACTAACATTCGATTTCTTG
1 TTCTGCACAGGTGAAAACTAACACTCGAGTTCTTG
* *
15576580 TTCTGCACAGGTGAAAACTAACCCTGGAGTTCTTG
1 TTCTGCACAGGTGAAAACTAACACTCGAGTTCTTG
15576615 AATTAGATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (35 bp):
TTCTGCACAGGTGAAAACTAACACTCGAGTTCTTG
Found at i:15582607 original size:13 final size:14
Alignment explanation
Indices: 15582589--15582618 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
15582579 AGTGACCTCC
15582589 AAGGAAAAGG-AAA
1 AAGGAAAAGGTAAA
15582602 AAGGAAAAGGTAAA
1 AAGGAAAAGGTAAA
15582616 AAG
1 AAG
15582619 AAGGCCGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (14 bp):
AAGGAAAAGGTAAA
Found at i:15583643 original size:17 final size:17
Alignment explanation
Indices: 15583623--15583657 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15583613 CATTCTTACA
15583623 TTTTATTGTGCA-TGCAT
1 TTTTATTGT-CACTGCAT
15583640 TTTTATTGTCACTGCAT
1 TTTTATTGTCACTGCAT
15583657 T
1 T
15583658 CATTTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.17, C:0.14, G:0.14, T:0.54
Consensus pattern (17 bp):
TTTTATTGTCACTGCAT
Found at i:15592418 original size:15 final size:16
Alignment explanation
Indices: 15592398--15592427 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15592388 CTCACATTTG
15592398 AAATTGC-ATCAAGGA
1 AAATTGCGATCAAGGA
15592413 AAATTGCGATCAAGG
1 AAATTGCGATCAAGG
15592428 TGGTCAGGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.20
Consensus pattern (16 bp):
AAATTGCGATCAAGGA
Found at i:15602930 original size:21 final size:21
Alignment explanation
Indices: 15602906--15602952 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
15602896 CACTTCATCG
15602906 TGACACGACTCCTATGTGTCA
1 TGACACGACTCCTATGTGTCA
* *
15602927 TGACACGACTCCTGTGTGTCG
1 TGACACGACTCCTATGTGTCA
15602948 TGACA
1 TGACA
15602953 TTGAATCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (21 bp):
TGACACGACTCCTATGTGTCA
Found at i:15604077 original size:13 final size:12
Alignment explanation
Indices: 15604035--15604082 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 12
15604025 AGATCTGATT
*
15604035 TTTTTATTATTT
1 TTTTTATTATTC
15604047 TATTTTATTTAATTC
1 T-TTTTA-TT-ATTC
15604062 TTTTTATTATTCC
1 TTTTTATTATT-C
15604075 TTTTTATT
1 TTTTTATT
15604083 TGATTTAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 4 0.13
13 16 0.52
14 7 0.23
15 4 0.13
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTATTATTC
Found at i:15612074 original size:21 final size:21
Alignment explanation
Indices: 15612050--15612104 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
15612040 TAGAAGCAAG
* * *
15612050 ACTTGTTTCGGTAGAATTGAC
1 ACTTGTTTCAGTAGAACTAAC
* *
15612071 ACTTGTATCAGTTGAACTAAC
1 ACTTGTTTCAGTAGAACTAAC
15612092 ACTTGTTTCAGTA
1 ACTTGTTTCAGTA
15612105 AAAATCTACA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (21 bp):
ACTTGTTTCAGTAGAACTAAC
Found at i:15619206 original size:15 final size:16
Alignment explanation
Indices: 15619186--15619217 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
15619176 ATCATAAATT
15619186 TTTTTCTT-CTTTTTC
1 TTTTTCTTCCTTTTTC
15619201 TTTTTCTTCCTTTTTC
1 TTTTTCTTCCTTTTTC
15619217 T
1 T
15619218 CAATTTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTCTTCCTTTTTC
Found at i:15632645 original size:37 final size:36
Alignment explanation
Indices: 15632587--15632687 Score: 116
Period size: 37 Copynumber: 2.8 Consensus size: 36
15632577 TTTAATCCAG
*
15632587 AATTGCACCGAAATA-TATCGCTGCATGAGCAA-TTCTA
1 AATTGCACC-AAA-ACTGTCGCTGCATGAGCAATTTC-A
* *
15632624 AATTGCATCCAAAACTGTCGCTTCATGAGCACTTTCA
1 AATTGCA-CCAAAACTGTCGCTGCATGAGCAATTTCA
*
15632661 GATTGCACCAAAACTGTCGCTGCATGA
1 AATTGCACCAAAACTGTCGCTGCATGA
15632688 ATATTTCCGA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
36 20 0.36
37 31 0.55
38 5 0.09
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (36 bp):
AATTGCACCAAAACTGTCGCTGCATGAGCAATTTCA
Found at i:15632704 original size:36 final size:36
Alignment explanation
Indices: 15632627--15632729 Score: 91
Period size: 36 Copynumber: 2.8 Consensus size: 36
15632617 AATTCTAAAT
* * ** *
15632627 TGCATCCAAAACTGTCGCTTCATGAGCACTTTCAGAT
1 TGCACCCAAAACTGTCGCTGCATGAATA-TTTCAGAA
*
15632664 TGCA-CCAAAACTGTCGCTGCATGAATATTTCCGAAA
1 TGCACCCAAAACTGTCGCTGCATGAATATTTCAG-AA
* * * *
15632700 TGCACCCTAGACTGTCGCAGCATAAATATT
1 TGCACCCAAAACTGTCGCTGCATGAATATT
15632730 CTTCAAATTG
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
35 5 0.09
36 25 0.45
37 25 0.45
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (36 bp):
TGCACCCAAAACTGTCGCTGCATGAATATTTCAGAA
Found at i:15632796 original size:37 final size:38
Alignment explanation
Indices: 15632657--15632797 Score: 132
Period size: 37 Copynumber: 3.8 Consensus size: 38
15632647 CATGAGCACT
* * *
15632657 TTCAGATTGCA-CCAAAACTGTCGCTGCATGAATATT-
1 TTCAAATTGCACCCAGAACTGTCGCTGCATAAATATTC
* *
15632693 TCCGAAA-TGCACCCTAG-ACTGTCGCAGCATAAATATTC
1 TTC-AAATTGCACCC-AGAACTGTCGCTGCATAAATATTC
* * * *
15632731 TTCAAATTGCATCCAGAACTATCACTGCATAAGTATTC
1 TTCAAATTGCACCCAGAACTGTCGCTGCATAAATATTC
15632769 TTC-AATTGCACCCAGGAA-TGTCGCTGCAT
1 TTCAAATTGCACCCA-GAACTGTCGCTGCAT
15632798 GAACATGTAC
Statistics
Matches: 84, Mismatches: 14, Indels: 13
0.76 0.13 0.12
Matches are distributed among these distances:
36 6 0.07
37 46 0.55
38 32 0.38
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (38 bp):
TTCAAATTGCACCCAGAACTGTCGCTGCATAAATATTC
Found at i:15634135 original size:21 final size:21
Alignment explanation
Indices: 15634111--15634168 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
15634101 TAGAAGCATG
* *
15634111 ACTTGTTTCGATAGAATTGGC
1 ACTTGTTTCGATAGAACTAGC
* *
15634132 ACTTGTATCGATAGAACTATC
1 ACTTGTTTCGATAGAACTAGC
*
15634153 ACTTATTTCGATAGAA
1 ACTTGTTTCGATAGAA
15634169 ATCTGTACTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (21 bp):
ACTTGTTTCGATAGAACTAGC
Found at i:15634585 original size:12 final size:11
Alignment explanation
Indices: 15634566--15634608 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
15634556 TGCATTTGGT
15634566 TTTATTTTTCA
1 TTTATTTTTCA
**
15634577 TTTATTTTTGGT
1 TTTATTTTT-CA
*
15634589 TTTATTTTTCG
1 TTTATTTTTCA
15634600 TTTATTTTT
1 TTTATTTTT
15634609 GTTTTTGATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.77
Consensus pattern (11 bp):
TTTATTTTTCA
Found at i:15634587 original size:23 final size:23
Alignment explanation
Indices: 15634560--15634614 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
15634550 AACTTTTGCA
15634560 TTTGGTTTTATTTTTCATTTATT
1 TTTGGTTTTATTTTTCATTTATT
*
15634583 TTTGGTTTTATTTTTCGTTTATT
1 TTTGGTTTTATTTTTCATTTATT
*
15634606 TTTGTTTTT
1 TTTGGTTTT
15634615 GATGTGTGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.09, C:0.04, G:0.11, T:0.76
Consensus pattern (23 bp):
TTTGGTTTTATTTTTCATTTATT
Found at i:15640672 original size:15 final size:16
Alignment explanation
Indices: 15640652--15640681 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15640642 ACAAATTTTT
15640652 AGGGTTTTTA-AGGAG
1 AGGGTTTTTAGAGGAG
15640667 AGGGTTTTTAGAGGA
1 AGGGTTTTTAGAGGA
15640682 TGTAGGTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.00, G:0.40, T:0.33
Consensus pattern (16 bp):
AGGGTTTTTAGAGGAG
Found at i:15656445 original size:8 final size:8
Alignment explanation
Indices: 15656434--15656460 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
15656424 TTTTTTTAAA
15656434 ATATATAG
1 ATATATAG
15656442 ATATATAG
1 ATATATAG
15656450 ATATATAG
1 ATATATAG
15656458 ATA
1 ATA
15656461 GATTATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (8 bp):
ATATATAG
Found at i:15658086 original size:23 final size:23
Alignment explanation
Indices: 15658041--15658136 Score: 70
Period size: 23 Copynumber: 3.8 Consensus size: 23
15658031 AATTTGACAC
*
15658041 TTTTTATTAATTTGGTA-TGTAAA
1 TTTTTTTTAATTTGGTACT-TAAA
15658064 TTTTTTTTAATTTGGTACTTAAACTTGA
1 TTTTTTTTAATTTGGTACTT-AA----A
*
15658092 TACTTTTTTCTAATTTGGTACTT-AT
1 T--TTTTTT-TAATTTGGTACTTAAA
15658117 TTTTTTGTTAATTTGGTACT
1 TTTTTT-TTAATTTGGTACT
15658137 CAAACTTGAC
Statistics
Matches: 61, Mismatches: 2, Indels: 20
0.73 0.02 0.24
Matches are distributed among these distances:
23 34 0.56
24 4 0.07
25 1 0.02
28 2 0.03
29 1 0.02
30 6 0.10
31 13 0.21
ACGTcount: A:0.23, C:0.06, G:0.11, T:0.59
Consensus pattern (23 bp):
TTTTTTTTAATTTGGTACTTAAA
Found at i:15658106 original size:54 final size:54
Alignment explanation
Indices: 15658018--15658165 Score: 178
Period size: 54 Copynumber: 2.8 Consensus size: 54
15658008 TTTAATATAA
* * *
15658018 AATTTGGTATTTGAATTTGACACTTTTTAT-TAATTTGGTA-TGTAAATTTTTT-TT
1 AATTTGGTACTTAAACTTGACACTTTTT-TCTAATTTGGTACT-T-AATTTTTTGTT
* *
15658072 AATTTGGTACTTAAACTTGATACTTTTTTCTAATTTGGTACTTATTTTTTTGTT
1 AATTTGGTACTTAAACTTGACACTTTTTTCTAATTTGGTACTTAATTTTTTGTT
* *
15658126 AATTTGGTACTCAAACTTGACAC-TTTTCCTAATTTGGTAC
1 AATTTGGTACTTAAACTTGACACTTTTTTCTAATTTGGTAC
15658166 ATAAACTTGA
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
53 24 0.29
54 58 0.70
55 1 0.01
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (54 bp):
AATTTGGTACTTAAACTTGACACTTTTTTCTAATTTGGTACTTAATTTTTTGTT
Found at i:15658159 original size:30 final size:30
Alignment explanation
Indices: 15658125--15658182 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
15658115 ATTTTTTTGT
15658125 TAATTTGGTAC-TCAAACTTGACACTTTTCC
1 TAATTTGGTACAT-AAACTTGACACTTTTCC
*
15658155 TAATTTGGTACATAAACTTGACATTTTT
1 TAATTTGGTACATAAACTTGACACTTTT
15658183 TTTAAGTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.43
Consensus pattern (30 bp):
TAATTTGGTACATAAACTTGACACTTTTCC
Found at i:15658514 original size:60 final size:57
Alignment explanation
Indices: 15658424--15658596 Score: 202
Period size: 60 Copynumber: 2.9 Consensus size: 57
15658414 AAATTGAATC
* *
15658424 TAAAAAATATTTAAGTACCAAATTAGGAAAAAATACCAAGTTCAAATACCAAATTGAG
1 TAAAAAA-ATTTAAGTACCAAATTAAGAAAAAATATCAAGTTCAAATACCAAATTGAG
* * * **
15658482 TTCAAACAAAGTTTAGGTACCGAATTAAGAAAAAGCATCAAGTTCAAATACCAAATTGAG
1 -T-AAA-AAAATTTAAGTACCAAATTAAGAAAAAATATCAAGTTCAAATACCAAATTGAG
* * *
15658542 TAAAAAAATTTAAATACCAAATTAAGAAAAAAAATATCAAGTTTAAGTACCAAAT
1 TAAAAAAATTTAAGTACCAAATTAAG--AAAAAATATCAAGTTCAAATACCAAAT
15658597 GTTATATTAA
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
57 18 0.19
58 3 0.03
59 25 0.26
60 46 0.48
61 3 0.03
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.24
Consensus pattern (57 bp):
TAAAAAAATTTAAGTACCAAATTAAGAAAAAATATCAAGTTCAAATACCAAATTGAG
Found at i:15658563 original size:26 final size:26
Alignment explanation
Indices: 15658527--15658576 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
15658517 CATCAAGTTC
* *
15658527 AAATACCAAATTGAGTAAAAAAATTT
1 AAATACCAAATTAAGAAAAAAAATTT
15658553 AAATACCAAATTAAGAAAAAAAAT
1 AAATACCAAATTAAGAAAAAAAAT
15658577 ATCAAGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.22
Consensus pattern (26 bp):
AAATACCAAATTAAGAAAAAAAATTT
Found at i:15659906 original size:25 final size:24
Alignment explanation
Indices: 15659861--15659909 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
15659851 AATTTATTTT
*
15659861 TTTTAAATTAATTTTCAATAATTA
1 TTTTAAATTAATTTTAAATAATTA
15659885 TTTTAAATT-ATTATTAATATAATTA
1 TTTTAAATTAATT-TTAA-ATAATTA
15659910 AAATTACATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 12 0.55
25 7 0.32
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTAAATTAATTTTAAATAATTA
Found at i:15660615 original size:68 final size:64
Alignment explanation
Indices: 15660527--15660708 Score: 196
Period size: 62 Copynumber: 2.8 Consensus size: 64
15660517 GCATTTATAA
*
15660527 AAATTTAATTTAATAATTATCTTAAT-AGTATTTTATTAATTTAATATTAAAATGATTATTTTAA
1 AAATTTAATTTAATATTTATCTTAATAAGTATTTTATTAATTTAATATTAAAA-G---A-TTTAA
15660591 TATT
61 TATT
*
15660595 AAATTTAATTTAATATTTATCTTATAAATAAATATTTTATTAATTT-A-A-T--AAGATTTAATA
1 AAATTTAATTTAATATTTATC-T-T-AATAAGTATTTTATTAATTTAATATTAAAAGATTTAATA
15660655 TT
63 TT
* * * *
15660657 AAAATTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAA
1 AAATTTAATTTAATATTTATCTTAATAAGTATTTTATTAATTTAATATTAAA
15660709 GTTTAGAGAA
Statistics
Matches: 98, Mismatches: 7, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
59 17 0.17
60 2 0.02
61 2 0.02
62 29 0.30
63 1 0.01
64 1 0.01
66 1 0.01
67 2 0.02
68 20 0.20
69 2 0.02
70 2 0.02
71 4 0.04
72 15 0.15
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.51
Consensus pattern (64 bp):
AAATTTAATTTAATATTTATCTTAATAAGTATTTTATTAATTTAATATTAAAAGATTTAATATT
Found at i:15662491 original size:398 final size:391
Alignment explanation
Indices: 15661762--15662528 Score: 1043
Period size: 398 Copynumber: 1.9 Consensus size: 391
15661752 GCTTTTCAAA
* *
15661762 TTTTAAGATTTTTAAGGTTCCATTTATTAATGGTTTAGGGTTTTCAATTTTAACAATGAATATTT
1 TTTTAAGATTTTTAAGGTTCCATTTATTAAGGGTTTAGGGTTTTCAATTTGAACAATGAATATTT
* * * *
15661827 TTAGGTAGTTTTTAGGGTTCGGAGATGTGATGACGCACTTTAAACACATGCATTTCATGACTAGA
66 TTAGGTAGTTTTGAGGGGTCGGAGATGTGATAACGCACTTTAAACACATACATTTCATGACTAGA
*** * * * * * * *
15661892 TGGGGTCATCCCCTTGGAAACCCATTGTGGGGAAGTCGGGTTTTGGGGCGACAGTGTTTGATACG
131 TGGGGTCATCCCCTCAAAAAACCATTATGGGAAAGTCGGGTTTTGAGGCGACAATGGTCGATACG
* * * * * * *
15661957 ATCAGTGGTGGTGGAACTTCAAGTGGAGGTCCTAGTCGACGACCGTGATGTGTTCACGGGTTCGA
196 ATCAATGGTGATGGAACTTCAAGTGGAGGTCCCAATCGACGACCATGATGCGTTCACGGGTTCAA
* * * * *
15662022 GTATAATCGGGGCCTTGGTGATGGTTGTTACACGCTAATGAGTTCAAGGTTTTTGGATACCCGCT
261 GTATAATCGAGGCCTTGGTAATGGTTGCTACACACTAATGAGTTCAAGGATTTTGGATACCCGCT
* *
15662087 AATGATGCCTTATAAATATCGTACATAATATTAATGTCATAATCCAATTAGACGAGCTTTCTAGA
326 AATGATGCCATATAAATATCATACATAATATTAATGTCATAATCCAATTAGACGAGCTTTCTAGA
15662152 T
391 T
* *** * *
15662153 TTTTAAGGTTTTTTAAGGTTTTGTTTATTAGGGGTTTAGGGTTTTCAATTTGAACAGTGAAT-TT
1 TTTTAA-GATTTTTAAGGTTCCATTTATTAAGGGTTTAGGGTTTTCAATTTGAACAATGAATATT
*
15662217 TTTAGGTAGTTTTGAGGGGTCGGGGATGTGATAACGCACTTTAAACACATACATTTCAT-ATCTC
65 TTTAGGTAGTTTTGAGGGGTCGGAGATGTGATAACGCACTTTAAACACATACATTTCATGA-CT-
*
15662281 ATGACTGGATGAGGTCATCCCCTCAAAAAACTATTATGGGAAAGTCGGGTTTTGAGGCGACAATG
128 A-GA-T-G--G-GGTCATCCCCTCAAAAAACCATTATGGGAAAGTCGGGTTTTGAGGCGACAATG
* * *
15662346 GTCGATACGATCAATGGTGATGGAAGTTCAAGTGGAGGTCCCAATCGACGGCTATGATGCGTTCA
187 GTCGATACGATCAATGGTGATGGAACTTCAAGTGGAGGTCCCAATCGACGACCATGATGCGTTCA
**
15662411 CGGGTTCAAGTATAATTTAGGCCTTGGTAATGGTTGCTACACACTAATGAGTTCAAGGATTTTGG
252 CGGGTTCAAGTATAATCGAGGCCTTGGTAATGGTTGCTACACACTAATGAGTTCAAGGATTTTGG
*
15662476 ATACCCTCTAATGATGCCATATAAATATCATACATAATATTAATGTCATAATC
317 ATACCCGCTAATGATGCCATATAAATATCATACATAATATTAATGTCATAATC
15662529 GTACGAAAAA
Statistics
Matches: 323, Mismatches: 44, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
390 1 0.00
391 64 0.20
392 48 0.15
393 2 0.01
394 1 0.00
395 1 0.00
397 1 0.00
398 205 0.63
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (391 bp):
TTTTAAGATTTTTAAGGTTCCATTTATTAAGGGTTTAGGGTTTTCAATTTGAACAATGAATATTT
TTAGGTAGTTTTGAGGGGTCGGAGATGTGATAACGCACTTTAAACACATACATTTCATGACTAGA
TGGGGTCATCCCCTCAAAAAACCATTATGGGAAAGTCGGGTTTTGAGGCGACAATGGTCGATACG
ATCAATGGTGATGGAACTTCAAGTGGAGGTCCCAATCGACGACCATGATGCGTTCACGGGTTCAA
GTATAATCGAGGCCTTGGTAATGGTTGCTACACACTAATGAGTTCAAGGATTTTGGATACCCGCT
AATGATGCCATATAAATATCATACATAATATTAATGTCATAATCCAATTAGACGAGCTTTCTAGA
T
Found at i:15666981 original size:14 final size:14
Alignment explanation
Indices: 15666962--15666993 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
15666952 ACTATAACCC
*
15666962 TAAACCTTAAATCT
1 TAAACCTTAAATAT
15666976 TAAACCTTAAATAT
1 TAAACCTTAAATAT
15666990 TAAA
1 TAAA
15666994 ATAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (14 bp):
TAAACCTTAAATAT
Found at i:15668432 original size:15 final size:14
Alignment explanation
Indices: 15668414--15668461 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
15668404 AACTTTTTAG
15668414 TTTTCAATATTTAATT
1 TTTTC-ATATTTAA-T
* *
15668430 TTTTTATAATTATAT
1 TTTTCATATTTA-AT
15668445 TTTTCATATTTAAT
1 TTTTCATATTTAAT
15668459 TTT
1 TTT
15668462 CCTTTCACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 5 0.19
15 17 0.63
16 5 0.19
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTCATATTTAAT
Found at i:15668432 original size:31 final size:30
Alignment explanation
Indices: 15668383--15668461 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 30
15668373 ATATTTTTAC
* *
15668383 TCATAATTTAAATTTTTTTTTAACTTTTTAGTTT
1 TCAT-ATTT-AATTTTTTTATAA--TTATAGTTT
*
15668417 TCAATATTTAATTTTTTTATAATTATATTTT
1 TC-ATATTTAATTTTTTTATAATTATAGTTT
15668448 TCATATTTAATTTT
1 TCATATTTAATTTT
15668462 CCTTTCACTA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 12 0.29
31 9 0.22
33 12 0.29
34 6 0.15
35 2 0.05
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (30 bp):
TCATATTTAATTTTTTTATAATTATAGTTT
Found at i:15668900 original size:187 final size:181
Alignment explanation
Indices: 15668420--15668945 Score: 520
Period size: 187 Copynumber: 2.9 Consensus size: 181
15668410 TTAGTTTTCA
* **
15668420 ATATTTAATTTTTTTATAATTATATTTTTCATATTTAATTTTCCTTTCACTAACATGGCAACTTT
1 ATATTTAATTTTTTTA-AATTA-ATTTTT-ATATGT-A-TTTCCTTTCAC-AACATGATAA-TTT
* * * ** *
15668485 TTGTGTGCTATAAAAAAATAACAATACAATGACAAA-AAATCAACATGCATTTATTATTCTT-A-
59 TTGTGTGCTATAGAAAAATAACAATACAATGATAAATAATTGGA-GTGCATTTATTATTCTTAAT
* * * * *
15668547 ATGATGTACTTACCTATTTAGTTTCTTCTTACTCAAAATTTAAAATATTTTTTCTTTTT
123 ATGATGCATTTACCTATTTAATTTATTCTTACTCAAAATTTAAAATATTTTTTATTTTT
* * * * * *
15668606 AT-TTT-CTGATCTTT--ATT-ATTTTTAT-TAGAATTTCCCTTTCACAATATAATAATTTTTGG
1 ATATTTAAT-TTTTTTAAATTAATTTTTATAT-GTATTT-CCTTTCACAACATGATAATTTTT-G
* * *
15668665 TGTG-TCATAGGAAAATAACAATACTATAATAAATAATTGGAGTGCATTTATTTATTCTTAATAT
62 TGTGCT-ATAGAAAAATAACAATACAATGATAAATAATTGGAGTGCATTTA-TTATTCTTAATAT
* * *
15668729 GATGCATTTATCTATTTAATTT-TT-TTACTCACAATTTAAATTATTTTTTATTTTT
125 GATGCATTTACCTATTTAATTTATTCTTACTCAAAATTTAAAATATTTTTTATTTTT
15668784 GATATTTAATTTTTTTAAATTAGATTTTTAATAATGTATTTCCTTTCATCAACATGATAATTTTT
1 -ATATTTAATTTTTTTAAATTA-ATTTTT-AT-ATGTATTTCCTTTCA-CAACATGATAA-TTTT
*
15668849 TAGTGTGCTATAGAAAAATAACAATACAACGATAAATAATTGGAGTGCATTTATTATT-TCTAAT
60 T-GTGTGCTATAGAAAAATAACAATACAATGATAAATAATTGGAGTGCATTTATTATTCT-TAAT
15668913 ATGATGCATTTACCTATTTAATTTATTCTTACT
123 ATGATGCATTTACCTATTTAATTTATTCTTACT
15668946 TAGTTCAAAT
Statistics
Matches: 278, Mismatches: 37, Indels: 48
0.77 0.10 0.13
Matches are distributed among these distances:
176 6 0.02
177 44 0.16
178 50 0.18
179 7 0.03
180 33 0.12
181 1 0.00
182 6 0.02
184 7 0.03
185 17 0.06
186 48 0.17
187 53 0.19
188 6 0.02
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (181 bp):
ATATTTAATTTTTTTAAATTAATTTTTATATGTATTTCCTTTCACAACATGATAATTTTTGTGTG
CTATAGAAAAATAACAATACAATGATAAATAATTGGAGTGCATTTATTATTCTTAATATGATGCA
TTTACCTATTTAATTTATTCTTACTCAAAATTTAAAATATTTTTTATTTTT
Found at i:15676222 original size:14 final size:14
Alignment explanation
Indices: 15676203--15676265 Score: 67
Period size: 14 Copynumber: 4.5 Consensus size: 14
15676193 AATGGTCAAA
15676203 GTCAACGATCAATG
1 GTCAACGATCAATG
*
15676217 GTCAACGGTCAACT-
1 GTCAACGATCAA-TG
* *
15676231 GCCAACGACCAATG
1 GTCAACGATCAATG
15676245 GTCAACTGA-CAATG
1 GTCAAC-GATCAATG
15676259 GTCAACG
1 GTCAACG
15676266 GCCGGTCAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
13 2 0.05
14 36 0.88
15 3 0.07
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.17
Consensus pattern (14 bp):
GTCAACGATCAATG
Found at i:15676264 original size:28 final size:28
Alignment explanation
Indices: 15676203--15676265 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
15676193 AATGGTCAAA
* *
15676203 GTCAACGATCAATGGTCAACGGTCAACT
1 GTCAACGACCAATGGTCAACGGACAACT
* *
15676231 GCCAACGACCAATGGTCAACTGACAA-T
1 GTCAACGACCAATGGTCAACGGACAACT
15676258 GGTCAACG
1 -GTCAACG
15676266 GCCGGTCAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.17
Consensus pattern (28 bp):
GTCAACGACCAATGGTCAACGGACAACT
Found at i:15676348 original size:23 final size:23
Alignment explanation
Indices: 15676322--15676366 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
15676312 GGCTCCATAC
15676322 GGTTATTGGGTCAAATGGGTTTG
1 GGTTATTGGGTCAAATGGGTTTG
**
15676345 GGTTATTGGGTCAGTTGGGTTT
1 GGTTATTGGGTCAAATGGGTTT
15676367 AAAGGGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.04, G:0.40, T:0.42
Consensus pattern (23 bp):
GGTTATTGGGTCAAATGGGTTTG
Found at i:15676415 original size:22 final size:23
Alignment explanation
Indices: 15676387--15676430 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
15676377 TGGATTTAAT
15676387 TTTAAAA-GATTTGGGCTTAGGA
1 TTTAAAAGGATTTGGGCTTAGGA
*
15676409 TTTAAAAGGGTTTGGGCTTAGG
1 TTTAAAAGGATTTGGGCTTAGG
15676431 CACAAGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.27, C:0.05, G:0.32, T:0.36
Consensus pattern (23 bp):
TTTAAAAGGATTTGGGCTTAGGA
Found at i:15683464 original size:7 final size:7
Alignment explanation
Indices: 15683441--15683482 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
15683431 TTTTAAAAAA
15683441 GTCAACG
1 GTCAACG
*
15683448 GTCAA-A
1 GTCAACG
*
15683454 GTCAATG
1 GTCAACG
15683461 GTCAACG
1 GTCAACG
15683468 GTCAACG
1 GTCAACG
*
15683475 ATCAACG
1 GTCAACG
15683482 G
1 G
15683483 CCGATCAACG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:15683505 original size:11 final size:11
Alignment explanation
Indices: 15683473--15683508 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
15683463 CAACGGTCAA
*
15683473 CGATCAACGGC
1 CGATCAACGGT
15683484 CGATCAACGGT
1 CGATCAACGGT
15683495 CGATCAACGGT
1 CGATCAACGGT
15683506 CGA
1 CGA
15683509 CTTGGTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.28, C:0.31, G:0.28, T:0.14
Consensus pattern (11 bp):
CGATCAACGGT
Found at i:15698787 original size:22 final size:22
Alignment explanation
Indices: 15698762--15698819 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
15698752 AAAATAATAT
15698762 TCAATTAAATTGGCGCAATCAA
1 TCAATTAAATTGGCGCAATCAA
**
15698784 TCAATTAAATTGATGCAATCAA
1 TCAATTAAATTGGCGCAATCAA
15698806 TCAATTAAATTGGC
1 TCAATTAAATTGGC
15698820 ATATTACATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (22 bp):
TCAATTAAATTGGCGCAATCAA
Found at i:15709381 original size:3 final size:3
Alignment explanation
Indices: 15709373--15709406 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
15709363 TAATAGCATA
15709373 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
15709407 TGACTATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15709741 original size:7 final size:7
Alignment explanation
Indices: 15709729--15709775 Score: 60
Period size: 7 Copynumber: 6.4 Consensus size: 7
15709719 TAAAGAACAA
15709729 AAATAAT
1 AAATAAT
15709736 AAATAAT
1 AAATAAT
15709743 AAATAAT
1 AAATAAT
15709750 AAATAAAT
1 AAAT-AAT
15709758 GAATATAA-
1 -AA-ATAAT
15709766 AAATAAT
1 AAATAAT
15709773 AAA
1 AAA
15709776 ATATAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
6 4 0.11
7 23 0.64
8 3 0.08
9 4 0.11
10 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (7 bp):
AAATAAT
Found at i:15709771 original size:16 final size:17
Alignment explanation
Indices: 15709733--15709792 Score: 65
Period size: 16 Copynumber: 3.6 Consensus size: 17
15709723 GAACAAAAAT
15709733 AATAAATAATAA-ATAATA
1 AATAAATAA-AATATAA-A
*
15709751 AATAAAT-GAATATAAA
1 AATAAATAAAATATAAA
15709767 AAT-AATAAAATATAAA
1 AATAAATAAAATATAAA
15709783 AA-AAATAAAA
1 AATAAATAAAA
15709793 AAAAGGTAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
15 3 0.08
16 23 0.62
17 4 0.11
18 7 0.19
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (17 bp):
AATAAATAAAATATAAA
Found at i:15720333 original size:21 final size:23
Alignment explanation
Indices: 15720307--15720360 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
15720297 CTTTGCATAC
15720307 TTATTTTATTTTA-TTT-ATTAG
1 TTATTTTATTTTATTTTAATTAG
*
15720328 TTATTTT-TATTTATTTTAATTAT
1 TTATTTTAT-TTTATTTTAATTAG
15720351 TTA-TTTATTT
1 TTATTTTATTT
15720361 CTAGCATCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
21 11 0.39
22 8 0.29
23 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (23 bp):
TTATTTTATTTTATTTTAATTAG
Found at i:15720337 original size:17 final size:16
Alignment explanation
Indices: 15720307--15720360 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
15720297 CTTTGCATAC
15720307 TTATTTT-A-TTTTAT
1 TTATTTTAATTTTTAT
15720321 TTATTAGTT-ATTTTTAT
1 TTATT--TTAATTTTTAT
15720338 TTATTTTAATTATTTAT
1 TTATTTTAATT-TTTAT
15720355 TTATTT
1 TTATTT
15720361 CTAGCATCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.14
15 2 0.06
16 6 0.17
17 22 0.63
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (16 bp):
TTATTTTAATTTTTAT
Found at i:15730062 original size:228 final size:228
Alignment explanation
Indices: 15729666--15730119 Score: 757
Period size: 228 Copynumber: 2.0 Consensus size: 228
15729656 TCAGATGGTC
* *
15729666 GCAGAAAGTTTCCCAGCCCAGTTGAGAGATTATTCTCGTAACCTATTTCCCCAACGACTGTGTGG
1 GCAGAAAGTTTCCCAGCCCAGCTGAGAGATTATTCTCGCAACCTATTTCCCCAACGACTGTGTGG
*
15729731 TGATAACTGAAAACCCTACTCTGAGTGACAGTTTCTCTTGAGCATGATGTCATGGTAGCGGTCTT
66 TGATAACTGAAAACCCTACTCTGAGTGACAGTTTCTCTTGAGAATGATGTCATGGTAGCGGTCTT
* * * *
15729796 TCGCTGCCTTGGAAAGGAATAGGATGGGTTCTTTTTGTGCAGGTTGGTCGACATTTTGAACCATA
131 TCGCTGCCTTGGAAAGGAATAGGACGGGTTCTTTTTGTGAAGGTTGGTCGACATTCTAAACCATA
*
15729861 GTGGTTGAGGCTTCAACGG-GGGATTTTGAAGG
196 ATGGTTGAGGCTTCAACGGAGGGATTTTGAAGG
* * *
15729893 GCAGAAAGTTTCCCAGCCCAGCTGAGAGATTGTTCTCGCAACCTTTTTCCCCAATGACTGATGTG
1 GCAGAAAGTTTCCCAGCCCAGCTGAGAGATTATTCTCGCAACCTATTTCCCCAACGACTG-TGTG
* * *
15729958 GTGATAACTGAAAACCCTGCTCTGGGTGACAGTTTCTCTTGAGAATGATGTCGTGGTAGCGGTCT
65 GTGATAACTGAAAACCCTACTCTGAGTGACAGTTTCTCTTGAGAATGATGTCATGGTAGCGGTCT
*
15730023 TTCGCTGCCTTGGAAAGGAATAGGACGGGTTCTTTTTGTGAAGGTTGGTCGGCATTCTAAACCAT
130 TTCGCTGCCTTGGAAAGGAATAGGACGGGTTCTTTTTGTGAAGGTTGGTCGACATTCTAAACCAT
15730088 AATGGTTGAGGCTTCAACGGAGGGATTTTGAA
195 AATGGTTGAGGCTTCAACGGAGGGATTTTGAA
15730120 TGGGGTTTTG
Statistics
Matches: 210, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
227 55 0.26
228 144 0.69
229 11 0.05
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (228 bp):
GCAGAAAGTTTCCCAGCCCAGCTGAGAGATTATTCTCGCAACCTATTTCCCCAACGACTGTGTGG
TGATAACTGAAAACCCTACTCTGAGTGACAGTTTCTCTTGAGAATGATGTCATGGTAGCGGTCTT
TCGCTGCCTTGGAAAGGAATAGGACGGGTTCTTTTTGTGAAGGTTGGTCGACATTCTAAACCATA
ATGGTTGAGGCTTCAACGGAGGGATTTTGAAGG
Found at i:15730672 original size:840 final size:840
Alignment explanation
Indices: 15729053--15731573 Score: 4988
Period size: 840 Copynumber: 3.0 Consensus size: 840
15729043 TCGGATGGTA
15729053 GCAGAAAGTTTCCCAGCCCAGCTGAGAGATTGTTCTCGCAACCTTTTTCCCCAATGACTGATGTG
1 GCAGAAAGTTTCCCAGCCCAGCTGAGAGATTGTTCTCGCAACCTTTTTCCCCAATGACTGATGTG
15729118 GTGATAACTGAAAACCCTGCTCTGGGTGACAGTTTCTCTTGAGAATGATGTCGTGGTAGCGGTCT
66 GTGATAACTGAAAACCCTGCTCTGGGTGACAGTTTCTCTTGAGAATGATGTCGTGGTAGCGGTCT
*
15729183 TTCGCTGCCTTGGAAAGGAACAGGACGGGTTCTTTTTGTGAAGGTTGGTCGGCATTCTAAACCAT
131 TTCGCTGCCTTGGAAAGGAATAGGACGGGTTCTTTTTGTGAAGGTTGGTCGGCATTCTAAACCAT
* *
15729248 AATGGTTGAGGCTTCAATGGAGGGATTTTGAAGGGGGTTTTGCTCCTCTTGTTCTGGCCATAATA
196 AATGGTTGAGGCTTCAACGGAGGGATTTTGAATGGGGTTTTGCTCCTCTTGTTCTGGCCATAATA
* *
15729313 GCAGTTGTGCTATGGGTTGAACGAAGGATTCAACTGTTCACAAAGTGAAACCATACCTTACTCTG
261 GTAGTTGTGCTATGGGTTGAACGAAGGATTCAGCTGTTCACAAAGTGAAACCATACCTTACTCTG
15729378 AGTGCTGAGATAACGCCTGTTCATAGTATAGTTGTGTGGACCGTTACTAGTCCATACAACACCCT
326 AGTGCTGAGATAACGCCTGTTCATAGTATAGTTGTGTGGACCGTTACTAGTCCATACAACACCCT
15729443 CGATGCATAAATTTCTCATCACCATGTCAGTGCCTTCATCTGTTAACTCCTCTAAAAACGCAGTG
391 CGATGCATAAATTTCTCATCACCATGTCAGTGCCTTCATCTGTTAACTCCTCTAAAAACGCAGTG
15729508 TGGGTATCCTCATTTTCAGTGAAATGGAAGAGTGCGTTGATGTGAGTTGCACTCCAAGGTACCAA
456 TGGGTATCCTCATTTTCAGTGAAATGGAAGAGTGCGTTGATGTGAGTTGCACTCCAAGGTACCAA
15729573 GCCTTCTCGTACAAATACGAACTCCTGTTAAAAGTCCACTAAATTGGCATAGAACTCCCTTACCA
521 GCCTTCTCGTACAAATACGAACTCCTGTTAAAAGTCCACTAAATTGGCATAGAACTCCCTTACCA
15729638 AAGTGGGGGACTACTCGATCAGATGGTCGCAGAAAGTTTCCCAGCCCAGTTGAGAGATTATTCTC
586 AAGTGGGGGACTACTCGATCAGATGGTCGCAGAAAGTTTCCCAGCCCAGTTGAGAGATTATTCTC
15729703 GTAACCTATTTCCCCAACGACTGTGTGGTGATAACTGAAAACCCTACTCTGAGTGACAGTTTCTC
651 GTAACCTATTTCCCCAACGACTGTGTGGTGATAACTGAAAACCCTACTCTGAGTGACAGTTTCTC
15729768 TTGAGCATGATGTCATGGTAGCGGTCTTTCGCTGCCTTGGAAAGGAATAGGATGGGTTCTTTTTG
716 TTGAGCATGATGTCATGGTAGCGGTCTTTCGCTGCCTTGGAAAGGAATAGGATGGGTTCTTTTTG
15729833 TGCAGGTTGGTCGACATTTTGAACCATAGTGGTTGAGGCTTCAACGGGGGATTTTGAAGG
781 TGCAGGTTGGTCGACATTTTGAACCATAGTGGTTGAGGCTTCAACGGGGGATTTTGAAGG
15729893 GCAGAAAGTTTCCCAGCCCAGCTGAGAGATTGTTCTCGCAACCTTTTTCCCCAATGACTGATGTG
1 GCAGAAAGTTTCCCAGCCCAGCTGAGAGATTGTTCTCGCAACCTTTTTCCCCAATGACTGATGTG
15729958 GTGATAACTGAAAACCCTGCTCTGGGTGACAGTTTCTCTTGAGAATGATGTCGTGGTAGCGGTCT
66 GTGATAACTGAAAACCCTGCTCTGGGTGACAGTTTCTCTTGAGAATGATGTCGTGGTAGCGGTCT
15730023 TTCGCTGCCTTGGAAAGGAATAGGACGGGTTCTTTTTGTGAAGGTTGGTCGGCATTCTAAACCAT
131 TTCGCTGCCTTGGAAAGGAATAGGACGGGTTCTTTTTGTGAAGGTTGGTCGGCATTCTAAACCAT
15730088 AATGGTTGAGGCTTCAACGGAGGGATTTTGAATGGGGTTTTGCTCCTCTTGTTCTGGCCATAATA
196 AATGGTTGAGGCTTCAACGGAGGGATTTTGAATGGGGTTTTGCTCCTCTTGTTCTGGCCATAATA
15730153 GTAGTTGTGCTATGGGTTGAACGAAGGATTCAGCTGTTCACAAAGTGAAACCATACCTTACTCTG
261 GTAGTTGTGCTATGGGTTGAACGAAGGATTCAGCTGTTCACAAAGTGAAACCATACCTTACTCTG
15730218 AGTGCTGAGATAACGCCTGTTCATAGTATAGTTGTGTGGACCGTTACTAGTCCATACAACACCCT
326 AGTGCTGAGATAACGCCTGTTCATAGTATAGTTGTGTGGACCGTTACTAGTCCATACAACACCCT
15730283 CGATGCATAAATTTCTCATCACCATGTCAGTGCCTTCATCTGTTAACTCCTCTAAAAACGCAGTG
391 CGATGCATAAATTTCTCATCACCATGTCAGTGCCTTCATCTGTTAACTCCTCTAAAAACGCAGTG
15730348 TGGGTATCCTCATTTTCAGTGAAATGGAAGAGTGCGTTGATGTGAGTTGCACTCCAAGGTACCAA
456 TGGGTATCCTCATTTTCAGTGAAATGGAAGAGTGCGTTGATGTGAGTTGCACTCCAAGGTACCAA
15730413 GCCTTCTCGTACAAATACGAACTCCTGTTAAAAGTCCACTAAATTGGCATAGAACTCCCTTACCA
521 GCCTTCTCGTACAAATACGAACTCCTGTTAAAAGTCCACTAAATTGGCATAGAACTCCCTTACCA
15730478 AAGTGGGGGACTACTCGATCAGATGGTCGCAGAAAGTTTCCCAGCCCAGTTGAGAGATTATTCTC
586 AAGTGGGGGACTACTCGATCAGATGGTCGCAGAAAGTTTCCCAGCCCAGTTGAGAGATTATTCTC
15730543 GTAACCTATTTCCCCAACGACTGTGTGGTGATAACTGAAAACCCTACTCTGAGTGACAGTTTCTC
651 GTAACCTATTTCCCCAACGACTGTGTGGTGATAACTGAAAACCCTACTCTGAGTGACAGTTTCTC
15730608 TTGAGCATGATGTCATGGTAGCGGTCTTTCGCTGCCTTGGAAAGGAATAGGATGGGTTCTTTTTG
716 TTGAGCATGATGTCATGGTAGCGGTCTTTCGCTGCCTTGGAAAGGAATAGGATGGGTTCTTTTTG
15730673 TGCAGGTTGGTCGACATTTTGAACCATAGTGGTTGAGGCTTCAACGGGGGATTTTGAAGG
781 TGCAGGTTGGTCGACATTTTGAACCATAGTGGTTGAGGCTTCAACGGGGGATTTTGAAGG
15730733 GCAGAAAGTTTCCCAGCCCAGCTGAGAGATTGTTCTCGCAACCTTTTTCCCCAATGACTGATGTG
1 GCAGAAAGTTTCCCAGCCCAGCTGAGAGATTGTTCTCGCAACCTTTTTCCCCAATGACTGATGTG
15730798 GTGATAACTGAAAACCCTGCTCTGGGTGACAGTTTCTCTTGAGAATGATGTCGTGGTAGCGGTCT
66 GTGATAACTGAAAACCCTGCTCTGGGTGACAGTTTCTCTTGAGAATGATGTCGTGGTAGCGGTCT
15730863 TTCGCTGCCTTGGAAAGGAATAGGACGGGTTCTTTTTGTGAAGGTTGGTCGGCATTCTAAACCAT
131 TTCGCTGCCTTGGAAAGGAATAGGACGGGTTCTTTTTGTGAAGGTTGGTCGGCATTCTAAACCAT
15730928 AATGGTTGAGGCTTCAACGGAGGGATTTTGAATGGGGTTTTGCTCCTCTTGTTCTGGCCATAATA
196 AATGGTTGAGGCTTCAACGGAGGGATTTTGAATGGGGTTTTGCTCCTCTTGTTCTGGCCATAATA
15730993 GTAGTTGTGCTATGGGTTGAACGAAGGATTCAGCTGTTCACAAAGTGAAACCATACCTTACTCTG
261 GTAGTTGTGCTATGGGTTGAACGAAGGATTCAGCTGTTCACAAAGTGAAACCATACCTTACTCTG
15731058 AGTGCTGAGATAACGCCTGTTCATAGTATAGTTGTGTGGACCGTTACTAGTCCATACAACACCCT
326 AGTGCTGAGATAACGCCTGTTCATAGTATAGTTGTGTGGACCGTTACTAGTCCATACAACACCCT
15731123 CGATGCATAAATTTCTCATCACCATGTCAGTGCCTTCATCTGTTAACTCCTCTAAAAACGCAGTG
391 CGATGCATAAATTTCTCATCACCATGTCAGTGCCTTCATCTGTTAACTCCTCTAAAAACGCAGTG
15731188 TGGGTATCCTCATTTTCAGTGAAATGGAAGAGTGCGTTGATGTGAGTTGCACTCCAAGGTACCAA
456 TGGGTATCCTCATTTTCAGTGAAATGGAAGAGTGCGTTGATGTGAGTTGCACTCCAAGGTACCAA
15731253 GCCTTCTCGTACAAATACGAACTCCTGTTAAAAGTCCACTAAATTGGCATAGAACTCCCTTACCA
521 GCCTTCTCGTACAAATACGAACTCCTGTTAAAAGTCCACTAAATTGGCATAGAACTCCCTTACCA
*
15731318 AAGTGGGGGACTACTCGATCAGATGGTCGCAGAAAGTTTCCCAGCCCAGTTGAGAGATTGTTCTC
586 AAGTGGGGGACTACTCGATCAGATGGTCGCAGAAAGTTTCCCAGCCCAGTTGAGAGATTATTCTC
15731383 GTAACCTATTTCCCCAACGACTGTGTGGTGATAACTGAAAACCCTACTCTGAGTGACAGTTTCTC
651 GTAACCTATTTCCCCAACGACTGTGTGGTGATAACTGAAAACCCTACTCTGAGTGACAGTTTCTC
15731448 TTGAGCATGATGTCATGGTAGCGGTCTTTCGCTGCCTTGGAAAGGAATAGGATGGGTTCTTTTTG
716 TTGAGCATGATGTCATGGTAGCGGTCTTTCGCTGCCTTGGAAAGGAATAGGATGGGTTCTTTTTG
15731513 TGCAGGTTGGTCGACATTTTGAACCATAGTGGTTGAGGCTTCAACGGGGGATTTTGAAGG
781 TGCAGGTTGGTCGACATTTTGAACCATAGTGGTTGAGGCTTCAACGGGGGATTTTGAAGG
15731573 G
1 G
15731574 GTTTTTACTC
Statistics
Matches: 1675, Mismatches: 6, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
840 1675 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (840 bp):
GCAGAAAGTTTCCCAGCCCAGCTGAGAGATTGTTCTCGCAACCTTTTTCCCCAATGACTGATGTG
GTGATAACTGAAAACCCTGCTCTGGGTGACAGTTTCTCTTGAGAATGATGTCGTGGTAGCGGTCT
TTCGCTGCCTTGGAAAGGAATAGGACGGGTTCTTTTTGTGAAGGTTGGTCGGCATTCTAAACCAT
AATGGTTGAGGCTTCAACGGAGGGATTTTGAATGGGGTTTTGCTCCTCTTGTTCTGGCCATAATA
GTAGTTGTGCTATGGGTTGAACGAAGGATTCAGCTGTTCACAAAGTGAAACCATACCTTACTCTG
AGTGCTGAGATAACGCCTGTTCATAGTATAGTTGTGTGGACCGTTACTAGTCCATACAACACCCT
CGATGCATAAATTTCTCATCACCATGTCAGTGCCTTCATCTGTTAACTCCTCTAAAAACGCAGTG
TGGGTATCCTCATTTTCAGTGAAATGGAAGAGTGCGTTGATGTGAGTTGCACTCCAAGGTACCAA
GCCTTCTCGTACAAATACGAACTCCTGTTAAAAGTCCACTAAATTGGCATAGAACTCCCTTACCA
AAGTGGGGGACTACTCGATCAGATGGTCGCAGAAAGTTTCCCAGCCCAGTTGAGAGATTATTCTC
GTAACCTATTTCCCCAACGACTGTGTGGTGATAACTGAAAACCCTACTCTGAGTGACAGTTTCTC
TTGAGCATGATGTCATGGTAGCGGTCTTTCGCTGCCTTGGAAAGGAATAGGATGGGTTCTTTTTG
TGCAGGTTGGTCGACATTTTGAACCATAGTGGTTGAGGCTTCAACGGGGGATTTTGAAGG
Found at i:15730902 original size:228 final size:228
Alignment explanation
Indices: 15730506--15730959 Score: 757
Period size: 228 Copynumber: 2.0 Consensus size: 228
15730496 TCAGATGGTC
* *
15730506 GCAGAAAGTTTCCCAGCCCAGTTGAGAGATTATTCTCGTAACCTATTTCCCCAACGACTGTGTGG
1 GCAGAAAGTTTCCCAGCCCAGCTGAGAGATTATTCTCGCAACCTATTTCCCCAACGACTGTGTGG
*
15730571 TGATAACTGAAAACCCTACTCTGAGTGACAGTTTCTCTTGAGCATGATGTCATGGTAGCGGTCTT
66 TGATAACTGAAAACCCTACTCTGAGTGACAGTTTCTCTTGAGAATGATGTCATGGTAGCGGTCTT
* * * *
15730636 TCGCTGCCTTGGAAAGGAATAGGATGGGTTCTTTTTGTGCAGGTTGGTCGACATTTTGAACCATA
131 TCGCTGCCTTGGAAAGGAATAGGACGGGTTCTTTTTGTGAAGGTTGGTCGACATTCTAAACCATA
*
15730701 GTGGTTGAGGCTTCAACGG-GGGATTTTGAAGG
196 ATGGTTGAGGCTTCAACGGAGGGATTTTGAAGG
* * *
15730733 GCAGAAAGTTTCCCAGCCCAGCTGAGAGATTGTTCTCGCAACCTTTTTCCCCAATGACTGATGTG
1 GCAGAAAGTTTCCCAGCCCAGCTGAGAGATTATTCTCGCAACCTATTTCCCCAACGACTG-TGTG
* * *
15730798 GTGATAACTGAAAACCCTGCTCTGGGTGACAGTTTCTCTTGAGAATGATGTCGTGGTAGCGGTCT
65 GTGATAACTGAAAACCCTACTCTGAGTGACAGTTTCTCTTGAGAATGATGTCATGGTAGCGGTCT
*
15730863 TTCGCTGCCTTGGAAAGGAATAGGACGGGTTCTTTTTGTGAAGGTTGGTCGGCATTCTAAACCAT
130 TTCGCTGCCTTGGAAAGGAATAGGACGGGTTCTTTTTGTGAAGGTTGGTCGACATTCTAAACCAT
15730928 AATGGTTGAGGCTTCAACGGAGGGATTTTGAA
195 AATGGTTGAGGCTTCAACGGAGGGATTTTGAA
15730960 TGGGGTTTTG
Statistics
Matches: 210, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
227 55 0.26
228 144 0.69
229 11 0.05
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (228 bp):
GCAGAAAGTTTCCCAGCCCAGCTGAGAGATTATTCTCGCAACCTATTTCCCCAACGACTGTGTGG
TGATAACTGAAAACCCTACTCTGAGTGACAGTTTCTCTTGAGAATGATGTCATGGTAGCGGTCTT
TCGCTGCCTTGGAAAGGAATAGGACGGGTTCTTTTTGTGAAGGTTGGTCGACATTCTAAACCATA
ATGGTTGAGGCTTCAACGGAGGGATTTTGAAGG
Found at i:15737993 original size:16 final size:16
Alignment explanation
Indices: 15737972--15738003 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15737962 AAAGTAAATC
15737972 AAACTAAATTAAATTA
1 AAACTAAATTAAATTA
15737988 AAACTAAATTAAATTA
1 AAACTAAATTAAATTA
15738004 CTATGCACGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (16 bp):
AAACTAAATTAAATTA
Found at i:15740202 original size:12 final size:12
Alignment explanation
Indices: 15740185--15740212 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
15740175 TCATATGCTC
15740185 TTTTTTCTTTTT
1 TTTTTTCTTTTT
15740197 TTTTTTCTTTTT
1 TTTTTTCTTTTT
15740209 TTTT
1 TTTT
15740213 CCATTTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:15741555 original size:18 final size:18
Alignment explanation
Indices: 15741529--15741585 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
15741519 CATCTTCAAT
*
15741529 TTCCACAGGATCTTCTTC
1 TTCCTCAGGATCTTCTTC
* *
15741547 TTTCTCAGGATCTTTTTC
1 TTCCTCAGGATCTTCTTC
*
15741565 TTCCTCAGGATATTCTTC
1 TTCCTCAGGATCTTCTTC
15741583 TTC
1 TTC
15741586 TTCTTCAGCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.14, C:0.28, G:0.11, T:0.47
Consensus pattern (18 bp):
TTCCTCAGGATCTTCTTC
Found at i:15741599 original size:21 final size:21
Alignment explanation
Indices: 15741557--15741599 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
15741547 TTTCTCAGGA
* *
15741557 TCTTTTTCTTCCTCAGGATAT
1 TCTTCTTCTTCCTCAGCATAT
* *
15741578 TCTTCTTCTTCTTCAGCTTAT
1 TCTTCTTCTTCCTCAGCATAT
15741599 T
1 T
15741600 GTTGAAGGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.26, G:0.07, T:0.56
Consensus pattern (21 bp):
TCTTCTTCTTCCTCAGCATAT
Found at i:15751150 original size:13 final size:13
Alignment explanation
Indices: 15751068--15751151 Score: 87
Period size: 13 Copynumber: 6.5 Consensus size: 13
15751058 ATATATGTAA
* *
15751068 ATGAAATGGTAAA
1 ATGAAATGGTTAT
*
15751081 ATGAAACGGTTAT
1 ATGAAATGGTTAT
15751094 ATGAAATGGTTAT
1 ATGAAATGGTTAT
*
15751107 AAGAAATGGTTAT
1 ATGAAATGGTTAT
* * * *
15751120 AGGGAATGATTAC
1 ATGAAATGGTTAT
15751133 ATGAAATGGTTAT
1 ATGAAATGGTTAT
*
15751146 GTGAAA
1 ATGAAA
15751152 ATATATGTAT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 57 1.00
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:15754154 original size:514 final size:513
Alignment explanation
Indices: 15753186--15754203 Score: 1709
Period size: 514 Copynumber: 2.0 Consensus size: 513
15753176 AATCATTCGA
15753186 TCATAATAAACAAGTTGAATTGTGAAATATTAAATATATTTTTTTCAAAAATTTTACCATGGATA
1 TCATAATAAACAAGTTGAATTGTGAAATATTAAATATATTTTTTTCAAAAATTTTACCATGGATA
*
15753251 AAATTGTTAGAATTTTACTAGAGGTAAAATTGAGATGAGAAAATTATTTAATAGAATATAAATAT
66 AAATCGTTAGAATTTTACTAGAGGTAAAATTGAGATGAGAAAATTATTTAATAGAATATAAATAT
* *
15753316 TGAATTTTATTTTGGGAAATAGAAAAGCAAAATCAGGTTGGGTCAAATTACGAAGTATTGGGTTG
131 TAAATTTTATTTTGGGAAATAGAAAAGCAAAATCAGGTTGGGTCAAATTACAAAGTATTGGGTTG
*
15753381 AAAAGTCCGAAAAATACTCGTAATTAGATTTGATGTAAGAGAGGCCCAAAAACCCCTCATGGATA
196 AAAAGTCCGAAAAATACTCGTAATTAGATCTGATGTAAGAGAGGCCCAAAAACCCCTCATGGATA
* *
15753446 TGAGGGGAGCGGCAACCCTAGTAGCAATACTAGGGGATGTTGTCTACCCTGCTCATACTCTAAGT
261 TGAGGGGAGCGGCAACCCTAGTAGCAATACTAAGGGATGTTGTCTACCCTACTCATACTCTAAGT
* *
15753511 AAAATGTTGTTTTTCTAGTTGAAATAAATTTTCTACAATTTAACAAGGGTTCTACTTTCTCTCCC
326 AAAAAGTTATTTTTCTAGTTGAAATAAATTTTCTACAATTTAACAAGGGTTCTACTTTCTCTCCC
* *
15753576 TATAAATAAATGGCACCGATAGAGCTATTAACACAACTTTAAGATATTGTTATTCTATCAAAAAA
391 TATAAATAAATGGCACCAATAGAGCTATTAACACAACTTTAAGATATTGTTATTCTACCAAAAAA
*
15753641 TAGAGAAAATTTATTTTCAACTATTAAATATATATTTTTTAGAATAATAATTCAGTTGG
456 TAGAGAAAATTTATTTTCAACTATTAAATATAT-TTTTCTAGAATAATAATTCAGTTGG
*
15753700 TCATAATAAACAAGTTGAATTGTGAAATATTAAATATTTTTTTTTCAAAAATTTTACCATGGATA
1 TCATAATAAACAAGTTGAATTGTGAAATATTAAATATATTTTTTTCAAAAATTTTACCATGGATA
* * *
15753765 AAATCGTTATAATTTTACTAG-GAGTAAAATTGGGATGAGAAAATTATTTAATTGAATATAAATA
66 AAATCGTTAGAATTTTACTAGAG-GTAAAATTGAGATGAGAAAATTATTTAATAGAATATAAATA
*
15753829 TTAAATTTTATTTTGGGAAATAGAAAAGCAGAATCAGGTTGGGTCAAATTACAAAGTATTGGGTT
130 TTAAATTTTATTTTGGGAAATAGAAAAGCAAAATCAGGTTGGGTCAAATTACAAAGTATTGGGTT
* * * * *
15753894 GAAAAGTCTGAGAAGTACTCGTAATTAGATCTGATGTGAGAGAGGCCCAAAAACTCCTCATGGAT
195 GAAAAGTCCGAAAAATACTCGTAATTAGATCTGATGTAAGAGAGGCCCAAAAACCCCTCATGGAT
* *
15753959 ATGAGGGGAGCGGCAACCCTAGTAGTAATACTAAGGGATGTTGT-TCACCCTACTCCTACTCTAA
260 ATGAGGGGAGCGGCAACCCTAGTAGCAATACTAAGGGATGTTGTCT-ACCCTACTCATACTCTAA
15754023 GTAAAAAGTTATTTTTCTAGTTGAAATAAATTTTCTACAATTTAACAAGGGTTCTACTTTCTCTC
324 GTAAAAAGTTATTTTTCTAGTTGAAATAAATTTTCTACAATTTAACAAGGGTTCTACTTTCTCTC
* * * *
15754088 CCTATAAATAGATGGCACCAATAGAGCTATTAACA-TACTTTTAAGATATTGTTGTTCTGCCAAA
389 CCTATAAATAAATGGCACCAATAGAGCTATTAACACAAC-TTTAAGATATTGTTATTCTACCAAA
* * *
15754152 AAATAGAGAGAATTTATTTTTAATTATTAAATATATTTTTCTAGAATAATAA
453 AAATAGAGAAAATTTATTTTCAACTATTAAATATATTTTTCTAGAATAATAA
15754204 CTCAATCGAT
Statistics
Matches: 471, Mismatches: 30, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
513 19 0.04
514 452 0.96
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (513 bp):
TCATAATAAACAAGTTGAATTGTGAAATATTAAATATATTTTTTTCAAAAATTTTACCATGGATA
AAATCGTTAGAATTTTACTAGAGGTAAAATTGAGATGAGAAAATTATTTAATAGAATATAAATAT
TAAATTTTATTTTGGGAAATAGAAAAGCAAAATCAGGTTGGGTCAAATTACAAAGTATTGGGTTG
AAAAGTCCGAAAAATACTCGTAATTAGATCTGATGTAAGAGAGGCCCAAAAACCCCTCATGGATA
TGAGGGGAGCGGCAACCCTAGTAGCAATACTAAGGGATGTTGTCTACCCTACTCATACTCTAAGT
AAAAAGTTATTTTTCTAGTTGAAATAAATTTTCTACAATTTAACAAGGGTTCTACTTTCTCTCCC
TATAAATAAATGGCACCAATAGAGCTATTAACACAACTTTAAGATATTGTTATTCTACCAAAAAA
TAGAGAAAATTTATTTTCAACTATTAAATATATTTTTCTAGAATAATAATTCAGTTGG
Found at i:15759888 original size:89 final size:89
Alignment explanation
Indices: 15759757--15759924 Score: 221
Period size: 89 Copynumber: 1.9 Consensus size: 89
15759747 ATTAATCCCA
* * *
15759757 TTTTTTTCACTCATTTGAGTGCTTGAACTTTCAAAATGCATCAAAAAACCT-TCAAACCTTTAAA
1 TTTTTTTCACTCAATTGAGTACTTGAACTTTCAAAATGCATCAAAAAAACTCTCAAACCTTTAAA
15759821 AAAAAAGCAATTAATTCCCTACTT
66 AAAAAAGCAATTAATTCCCTACTT
* * * * * * **
15759845 TTTTTTTGCACTCAATTGGGTATTTGGACTTTTAAAATGCATCAAAAAAATTCTCAAACTTTTTC
1 TTTTTTT-CACTCAATTGAGTACTTGAACTTTCAAAATGCATCAAAAAAACTCTCAAACCTTTAA
15759910 AAAAAAAGCAATTAA
65 AAAAAAAGCAATTAA
15759925 GCCCTGCTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
88 7 0.10
89 36 0.54
90 24 0.36
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.36
Consensus pattern (89 bp):
TTTTTTTCACTCAATTGAGTACTTGAACTTTCAAAATGCATCAAAAAAACTCTCAAACCTTTAAA
AAAAAAGCAATTAATTCCCTACTT
Found at i:15760037 original size:17 final size:17
Alignment explanation
Indices: 15759997--15760045 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
15759987 AAAAATTATT
*
15759997 AAAAATTAGAAAAGAAATA
1 AAAAATTA-TAAA-AAATA
*
15760016 TAAAATTATAAAAAATA
1 AAAAATTATAAAAAATA
*
15760033 AAAAATTGTAAAA
1 AAAAATTATAAAA
15760046 TTTTATAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 16 0.62
18 3 0.12
19 7 0.27
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.22
Consensus pattern (17 bp):
AAAAATTATAAAAAATA
Found at i:15760057 original size:19 final size:19
Alignment explanation
Indices: 15760033--15760074 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
15760023 ATAAAAAATA
* *
15760033 AAAAATTGTAAAATTTTAT
1 AAAAATCGTAAAATATTAT
15760052 AAAAATCGTAAAATATTAT
1 AAAAATCGTAAAATATTAT
15760071 AAAA
1 AAAA
15760075 TATATAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (19 bp):
AAAAATCGTAAAATATTAT
Found at i:15760073 original size:10 final size:10
Alignment explanation
Indices: 15760030--15760097 Score: 50
Period size: 10 Copynumber: 6.9 Consensus size: 10
15760020 ATTATAAAAA
*
15760030 ATAAAAAATT
1 ATAAAATATT
* *
15760040 GTAAAATTTT
1 ATAAAATATT
*
15760050 ATAAAA-ATC
1 ATAAAATATT
*
15760059 GTAAAATATT
1 ATAAAATATT
15760069 ATAAAATA-T
1 ATAAAATATT
*
15760078 ATAGAAATATA
1 ATA-AAATATT
*
15760089 AAAAAATAT
1 ATAAAATAT
15760098 AAAACTTTAT
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
9 10 0.23
10 32 0.73
11 2 0.05
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (10 bp):
ATAAAATATT
Found at i:15760080 original size:9 final size:9
Alignment explanation
Indices: 15760013--15760149 Score: 61
Period size: 9 Copynumber: 15.0 Consensus size: 9
15760003 TAGAAAAGAA
15760013 ATATAAAAT
1 ATATAAAAT
*
15760022 -TATAAAAA
1 ATATAAAAT
*
15760030 ATAAAAAAT
1 ATATAAAAT
*
15760039 -TGTAAAATT
1 ATATAAAA-T
*
15760048 TTATAAAA-
1 ATATAAAAT
*
15760056 ATCGTAAAAT
1 AT-ATAAAAT
15760066 ATTATAAAAT
1 A-TATAAAAT
15760076 ATATAGAAAT
1 ATATA-AAAT
*
15760086 ATA-AAAAA
1 ATATAAAAT
15760094 ATATAAAACT
1 ATATAAAA-T
* *
15760104 TTATAAAGT
1 ATATAAAAT
* *
15760113 CGTAAGAAAAT
1 -AT-ATAAAAT
15760124 -TATACAAA-
1 ATATA-AAAT
*
15760132 ATATAAAAA
1 ATATAAAAT
15760141 ATATAAAAT
1 ATATAAAAT
15760150 TTGTAATAAG
Statistics
Matches: 96, Mismatches: 18, Indels: 28
0.68 0.13 0.20
Matches are distributed among these distances:
8 24 0.25
9 38 0.40
10 28 0.29
11 6 0.06
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (9 bp):
ATATAAAAT
Found at i:15760101 original size:56 final size:55
Alignment explanation
Indices: 15760014--15760148 Score: 157
Period size: 56 Copynumber: 2.4 Consensus size: 55
15760004 AGAAAAGAAA
* * * * *
15760014 TATAAAAT-TATAAAAAATAAAAAATTGTAAAATTTTATAAAAATCGTAA-AATAT
1 TATAAAATATATAAAATATAAAAAAATATAAAACTTTAT-AAAATCGTAAGAAAAT
*
15760068 TATAAAATATATAGAAATATAAAAAAATATAAAACTTTATAAAGTCGTAAGAAAAT
1 TATAAAATATATA-AAATATAAAAAAATATAAAACTTTATAAAATCGTAAGAAAAT
*
15760124 TATACAAAATATAAAAAATATAAAA
1 TAT--AAAATATATAAAATATAAAA
15760149 TTTGTAATAA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
54 8 0.12
55 13 0.19
56 29 0.42
57 10 0.14
58 9 0.13
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (55 bp):
TATAAAATATATAAAATATAAAAAAATATAAAACTTTATAAAATCGTAAGAAAAT
Found at i:15773253 original size:20 final size:20
Alignment explanation
Indices: 15773214--15773267 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
15773204 AGTCTTCAAG
* *
15773214 GTATCGATAGAAGTGGAGTT
1 GTATCGGTAGAAGTGAAGTT
*
15773234 GTATCGGTAGAAGTTAAGTT
1 GTATCGGTAGAAGTGAAGTT
* *
15773254 CTACCGGTAGAAGT
1 GTATCGGTAGAAGT
15773268 CTCACTGGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (20 bp):
GTATCGGTAGAAGTGAAGTT
Found at i:15773620 original size:52 final size:52
Alignment explanation
Indices: 15773542--15773722 Score: 299
Period size: 52 Copynumber: 3.5 Consensus size: 52
15773532 CAAAAGATCT
*
15773542 GATGACTATATGTCATCATGAGTATATGAATCCTTTACGGATTATAAGGTCC
1 GATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATAAGGTCC
*
15773594 GATGACTATGTGTCATCATGAGTATATGAATCTTTTACGGATTATAAGGTCC
1 GATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATAAGGTCC
* * *
15773646 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTTCGGATTATGAGGTCC
1 GATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATAAGGTCC
* *
15773698 GATGACAATGTGTCATCGTGAGTAT
1 GATGACTATGTGTCATCATGAGTAT
15773723 TAAATGAAAA
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 122 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (52 bp):
GATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATAAGGTCC
Found at i:15775666 original size:13 final size:13
Alignment explanation
Indices: 15775648--15775672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15775638 AGTTCTAAAC
15775648 TCTAATGAGTGTA
1 TCTAATGAGTGTA
15775661 TCTAATGAGTGT
1 TCTAATGAGTGT
15775673 TCTTTCTAAG
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:0.28, C:0.08, G:0.24, T:0.40
Consensus pattern (13 bp):
TCTAATGAGTGTA
Found at i:15775779 original size:24 final size:24
Alignment explanation
Indices: 15775751--15775837 Score: 129
Period size: 24 Copynumber: 3.6 Consensus size: 24
15775741 TAGACTAATA
*
15775751 AGAGTTTAACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
**
15775775 AGAGTTTAGTTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* *
15775799 AGAGTTTAATTGAAACAATTAAAC
1 AGAGTTTAACTGAAACAAATAAAC
15775823 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
15775838 GATTATTTCT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:15778608 original size:52 final size:52
Alignment explanation
Indices: 15778523--15778706 Score: 287
Period size: 52 Copynumber: 3.5 Consensus size: 52
15778513 ATGAAAAAGA
*
15778523 TCCGATGACTATGTGTTATCGTGAGTATATGAATCCTTTATGGATTATAAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATAAGG
* * ** *
15778575 TCTGATTACTATGTGTCATTATGAGTATATGAATCCTTTACGGATTATAAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATAAGG
* *
15778627 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTTTGGATTATGAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATAAGG
*
15778679 TCCGATGACAATGTGTCATCGTGAGTAT
1 TCCGATGACTATGTGTCATCGTGAGTAT
15778707 TAAATGAGAA
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 118 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (52 bp):
TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATAAGG
Found at i:15781025 original size:13 final size:13
Alignment explanation
Indices: 15781007--15781031 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15780997 AGTTCTAAAC
15781007 TCTAATGAGTGTA
1 TCTAATGAGTGTA
15781020 TCTAATGAGTGT
1 TCTAATGAGTGT
15781032 TCTTTCTAAG
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:0.28, C:0.08, G:0.24, T:0.40
Consensus pattern (13 bp):
TCTAATGAGTGTA
Found at i:15781171 original size:24 final size:24
Alignment explanation
Indices: 15781110--15781172 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
15781100 TAGACTGATA
* *
15781110 AGAGTTTAACTCAAACAAATAAAT
1 AGAGTTTAACTGAAACAAATAAAC
* *
15781134 GGAGTTTAATTGAAACAACA-AAAC
1 AGAGTTTAACTGAAACAA-ATAAAC
15781158 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
15781173 GATTATTTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 31 0.97
25 1 0.03
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.24
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:15798460 original size:41 final size:41
Alignment explanation
Indices: 15798415--15798529 Score: 158
Period size: 41 Copynumber: 2.8 Consensus size: 41
15798405 GTCAATGCTT
*
15798415 GTTAGCTTAAACTATCACTGCACCTTCCAGTGACAGTGACC
1 GTTAGCTTAAACTGTCACTGCACCTTCCAGTGACAGTGACC
* * * * *
15798456 GTTAGCTTAAATTGTCATTGTACCTTTCAGTGACAGTGATC
1 GTTAGCTTAAACTGTCACTGCACCTTCCAGTGACAGTGACC
* *
15798497 GTTAGCTTAAACTGTCGCTGCACCTTCTAGTGA
1 GTTAGCTTAAACTGTCACTGCACCTTCCAGTGA
15798530 TAATGACTGC
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (41 bp):
GTTAGCTTAAACTGTCACTGCACCTTCCAGTGACAGTGACC
Found at i:15826343 original size:30 final size:29
Alignment explanation
Indices: 15826301--15826362 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
15826291 CAAAAAAATT
*
15826301 AATTATTTTTTTAAAATATAAAATATTTTAA
1 AATTATTTTTTT-AAATATAAAA-ATATTAA
15826332 AATTA-TTTTTTAAATATAAAAATATTAA
1 AATTATTTTTTTAAATATAAAAATATTAA
15826360 AAT
1 AAT
15826363 CATCATGATC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 9 0.30
29 10 0.33
30 6 0.20
31 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
AATTATTTTTTTAAATATAAAAATATTAA
Found at i:15834629 original size:27 final size:26
Alignment explanation
Indices: 15834591--15834645 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
15834581 ATTAATAAAA
15834591 TTCTTTGTGTTTTTCTTTTA-AAGAAT
1 TTCTTTGTG-TTTTCTTTTAGAAGAAT
15834617 TTCTCTTGTGTTTTCTTTTAGAAGAAT
1 TTCT-TTGTGTTTTCTTTTAGAAGAAT
15834644 TT
1 TT
15834646 TAACAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.18, C:0.09, G:0.13, T:0.60
Consensus pattern (26 bp):
TTCTTTGTGTTTTCTTTTAGAAGAAT
Found at i:15836927 original size:35 final size:36
Alignment explanation
Indices: 15836874--15836956 Score: 116
Period size: 35 Copynumber: 2.4 Consensus size: 36
15836864 TTTGGTTGGG
**
15836874 AAATGGTTTACT-AGCTCTACGAAACAGCATCATGA
1 AAATGGTTTACTGAGCTCTACGAAACAGCATCACAA
* *
15836909 AAATGGTCTACTGA-CTCTACGAAACGGCATCACAA
1 AAATGGTTTACTGAGCTCTACGAAACAGCATCACAA
15836944 AAATGGTTTACTG
1 AAATGGTTTACTG
15836957 TCATTATGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 41 0.98
36 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (36 bp):
AAATGGTTTACTGAGCTCTACGAAACAGCATCACAA
Found at i:15838202 original size:46 final size:46
Alignment explanation
Indices: 15838124--15838215 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
15838114 ATTTAATTAC
15838124 ATAAACAATATAATGATTTTGCATTTTAACTTAATGAGTAAACATT
1 ATAAACAATATAATGATTTTGCATTTTAACTTAATGAGTAAACATT
*
15838170 ATAAACAATATAATGATTTTGGC-TTTTTACTTAATGAGTAAACATT
1 ATAAACAATATAATGATTTT-GCATTTTAACTTAATGAGTAAACATT
15838216 TATTAAAACG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 42 0.95
47 2 0.05
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (46 bp):
ATAAACAATATAATGATTTTGCATTTTAACTTAATGAGTAAACATT
Found at i:15841642 original size:37 final size:37
Alignment explanation
Indices: 15841601--15841679 Score: 158
Period size: 37 Copynumber: 2.1 Consensus size: 37
15841591 ATTGTAATAA
15841601 ATGCCAGAGGACTGGAAACATATCAAGAAGGAATGAG
1 ATGCCAGAGGACTGGAAACATATCAAGAAGGAATGAG
15841638 ATGCCAGAGGACTGGAAACATATCAAGAAGGAATGAG
1 ATGCCAGAGGACTGGAAACATATCAAGAAGGAATGAG
15841675 ATGCC
1 ATGCC
15841680 CTTGAAAAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.42, C:0.15, G:0.29, T:0.14
Consensus pattern (37 bp):
ATGCCAGAGGACTGGAAACATATCAAGAAGGAATGAG
Found at i:15841669 original size:21 final size:21
Alignment explanation
Indices: 15841608--15841669 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
15841598 TAAATGCCAG
15841608 AGGACTGGAAACATATCAAGA
1 AGGACTGGAAACATATCAAGA
* * * *
15841629 AGGAAT-G--AGAT-GCCAG-
1 AGGACTGGAAACATATCAAGA
15841645 AGGACTGGAAACATATCAAGA
1 AGGACTGGAAACATATCAAGA
15841666 AGGA
1 AGGA
15841670 ATGAGATGCC
Statistics
Matches: 28, Mismatches: 8, Indels: 10
0.61 0.17 0.22
Matches are distributed among these distances:
16 5 0.18
17 4 0.14
18 3 0.11
19 3 0.11
20 4 0.14
21 9 0.32
ACGTcount: A:0.45, C:0.13, G:0.29, T:0.13
Consensus pattern (21 bp):
AGGACTGGAAACATATCAAGA
Found at i:15843802 original size:7 final size:7
Alignment explanation
Indices: 15843767--15843817 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
15843757 CAAGTGTTTC
*
15843767 AGAAAAG
1 AGAAGAG
*
15843774 AGAAAAG
1 AGAAGAG
15843781 AGAA-A-
1 AGAAGAG
15843786 AGAATG-G
1 AGAA-GAG
15843793 AGAAGAG
1 AGAAGAG
15843800 AGAAGAG
1 AGAAGAG
15843807 AGAAGAG
1 AGAAGAG
15843814 AGAA
1 AGAA
15843818 TTTTCATTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.10
6 2 0.05
7 34 0.85
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (7 bp):
AGAAGAG
Found at i:15844686 original size:21 final size:20
Alignment explanation
Indices: 15844638--15844686 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
15844628 TATATTTTTT
15844638 AAAAATTTTAAACTTTTTAA
1 AAAAATTTTAAACTTTTTAA
* *
15844658 AAATAATTTTTAATTTTTTAA
1 AAA-AATTTTAAACTTTTTAA
15844679 AAGAAATT
1 AA-AAATT
15844687 AAACTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.12
21 21 0.84
22 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
AAAAATTTTAAACTTTTTAA
Found at i:15851219 original size:31 final size:31
Alignment explanation
Indices: 15851180--15851241 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
15851170 TTCTTTCGAT
15851180 TTTCTATATCATTAAAAATA-TGATCAAAAA
1 TTTCTATATCATTAAAAATATTGATCAAAAA
* * *
15851210 TTTCTTATATCGTTAAAACTATTGATGAAAAA
1 TTTC-TATATCATTAAAAATATTGATCAAAAA
15851242 GTTTGATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 4 0.15
31 14 0.52
32 9 0.33
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (31 bp):
TTTCTATATCATTAAAAATATTGATCAAAAA
Found at i:15852831 original size:14 final size:14
Alignment explanation
Indices: 15852809--15852851 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
15852799 AACAATGTAC
*
15852809 TAAACAAAATGATAG
1 TAAA-AAAATGATAA
15852824 TAAAAAAATGATAA
1 TAAAAAAATGATAA
*
15852838 TAATGAAAATGATA
1 TAA-AAAAATGATA
15852852 CTAATGACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (14 bp):
TAAAAAAATGATAA
Found at i:15852846 original size:15 final size:15
Alignment explanation
Indices: 15852814--15852858 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
15852804 TGTACTAAAC
* *
15852814 AAAATGATAGTAA-A
1 AAAATGATAATAATG
15852828 AAAATGATAATAATG
1 AAAATGATAATAATG
*
15852843 AAAATGATACTAATG
1 AAAATGATAATAATG
15852858 A
1 A
15852859 CAAAAAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.60, C:0.02, G:0.13, T:0.24
Consensus pattern (15 bp):
AAAATGATAATAATG
Found at i:15852997 original size:16 final size:15
Alignment explanation
Indices: 15852958--15853000 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
15852948 TTAAAAGAAT
*
15852958 AAAATATAAATATTAT
1 AAAATA-AAATATTAG
*
15852974 AAATTAAATATATTAG
1 AAAATAAA-ATATTAG
15852990 AAAATAAAATA
1 AAAATAAAATA
15853001 AAAATAAGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
AAAATAAAATATTAG
Found at i:15853964 original size:80 final size:80
Alignment explanation
Indices: 15853866--15854217 Score: 440
Period size: 80 Copynumber: 4.4 Consensus size: 80
15853856 TGAATATTTG
* * * * * *
15853866 TTGTCAGTTTAACTGACTAGAGCTGGGCTCACAATTGCAGTTTATCCGCTAGGCATTAGGTGCCA
1 TTGTCGGTTTAACCGACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAAGCACTAGGTGCCA
15853931 AGATTTGACGGATAT
66 AGATTTGACGGATAT
* * *
15853946 TTGTCGGCTTAACCGACTAGAGCTGGGCTCACATTTGTGATTTATCCGCTAAGCA-TAGGGTG-C
1 TTGTCGGTTTAACCGACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAAGCACTA-GGTGCC
*
15854009 TAGAATTTGACGGATAT
65 AAG-ATTTGACGGATAT
* * *
15854026 TTGTCGGTTTAACCGACTAGAGTTGGGCTCACATTTGCGGTTTATCCGCTAAGCACAAGGTGCTA
1 TTGTCGGTTTAACCGACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAAGCACTAGGTGCCA
*
15854091 GGATTTGACGGATAT
66 AGATTTGACGGATAT
** * *
15854106 TTGTCGGTTTAACCGACTAGAGCTGGGCTCACATTTGCGGTTTATTTGCTAAGCACTGGGTGCTA
1 TTGTCGGTTTAACCGACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAAGCACTAGGTGCCA
* *
15854171 GGATTTGATGGATAT
66 AGATTTGACGGATAT
* * * *
15854186 TGGTTGG-TTAATCCAACTAGAGCTGAGCTCAC
1 TTGTCGGTTTAA-CCGACTAGAGCTGGGCTCAC
15854218 TTTAGCGATT
Statistics
Matches: 240, Mismatches: 27, Indels: 10
0.87 0.10 0.04
Matches are distributed among these distances:
79 9 0.04
80 229 0.95
81 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (80 bp):
TTGTCGGTTTAACCGACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAAGCACTAGGTGCCA
AGATTTGACGGATAT
Found at i:15856381 original size:24 final size:24
Alignment explanation
Indices: 15856332--15856393 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 24
15856322 GGGCTTATAA
* *
15856332 TTGGGTATGGG-TATTTAAGTTAG
1 TTGGGTTTGGGTTATTTAAGGTAG
*
15856355 TTGGGCTTTTGGTTATTT-AGGTAG
1 TTGGG-TTTGGGTTATTTAAGGTAG
15856379 TTGGGTTTGGGTTAT
1 TTGGGTTTGGGTTAT
15856394 GTAAATGGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 14 0.42
24 14 0.42
25 5 0.15
ACGTcount: A:0.15, C:0.02, G:0.35, T:0.48
Consensus pattern (24 bp):
TTGGGTTTGGGTTATTTAAGGTAG
Found at i:15856461 original size:19 final size:21
Alignment explanation
Indices: 15856420--15856461 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 21
15856410 AATTAATGGG
**
15856420 TTTTAATTTATTTTTATTGAA
1 TTTTAATTTATTTTTATAAAA
15856441 TTTT-ATTT-TTTTTATAAAA
1 TTTTAATTTATTTTTATAAAA
15856460 TT
1 TT
15856462 GTGTTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 11 0.58
20 4 0.21
21 4 0.21
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTAATTTATTTTTATAAAA
Found at i:15856988 original size:51 final size:49
Alignment explanation
Indices: 15856933--15857298 Score: 251
Period size: 51 Copynumber: 7.2 Consensus size: 49
15856923 TCATCTTGCT
* *
15856933 CCACTGCAACTTCAGAGAGATAACGATTTGCTTCTGTAACTTCAATCCGAC
1 CCACTGCAACTTCAGAGAGATAA-GATTTGCTT-TGTAGCTTCAATCTGAC
* * * *
15856984 CCACTACAACTTCAGGGATATAAGATTTGGTTTTGTAGCTTC-ATCCTG-C
1 CCACTGCAACTTCAGAGAGATAAGATTT-GCTTTGTAGCTTCAAT-CTGAC
** * *
15857033 TTTACTGCAACTTCAGAGAGATAAGGATTTGCTTTCGTAGCTTCAATATGAT
1 -CCACTGCAACTTCAGAGAGATAA-GATTTGCTTT-GTAGCTTCAATCTGAC
** * * * *
15857085 CCACTTTAACTTCAGGGATATAAGATTTGATGTTGTAGCTT-TATCTTG-C
1 CCACTGCAACTTCAGAGAGATAAGATTTGCT-TTGTAGCTTCAATC-TGAC
* * * * * **
15857134 TCCTCTACAACTTAAGGGAGATAAAGATTTGCTTTTGTAGTTTCAATCAAAC
1 -CCACTGCAACTTCAGAGAGAT-AAGATTTGC-TTTGTAGCTTCAATCTGAC
* * * * *
15857186 TCACTGCAATTTCAG-GGGTATAGGATTTGGTTTTGTAGCTTC-ATCTTG-C
1 CCACTGCAACTTCAGAGAG-ATAAGATTT-GCTTTGTAGCTTCAATC-TGAC
* *
15857235 TCTACTGCAACTTCAGAGAGATAAAGATTTGCTTTCGTAGCTTCAATCTGAT
1 -CCACTGCAACTTCAGAGAGAT-AAGATTTGCTTT-GTAGCTTCAATCTGAC
15857287 CCACTGCAACTT
1 CCACTGCAACTT
15857299 TAGGTATATA
Statistics
Matches: 239, Mismatches: 53, Indels: 46
0.71 0.16 0.14
Matches are distributed among these distances:
49 9 0.04
50 105 0.44
51 115 0.48
52 10 0.04
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (49 bp):
CCACTGCAACTTCAGAGAGATAAGATTTGCTTTGTAGCTTCAATCTGAC
Found at i:15857049 original size:101 final size:101
Alignment explanation
Indices: 15856921--15857315 Score: 488
Period size: 101 Copynumber: 3.9 Consensus size: 101
15856911 GATGTCATAA
* * * *
15856921 CTTCATCTTGCTCCACTGCAACTTCAGAGAGATAACGATTTGC-TTCTGTAACTTCAATCCGACC
1 CTTCATCTTGCTCTACTGCAACTTCAGAGAGATAAAGATTTGCTTTC-GTAGCTTCAATCTGACC
*
15856985 CACTACAACTTCAGGGATATAAGATTTGGTTTTGTAG
65 CACTGCAACTTCAGGGATATAAGATTTGGTTTTGTAG
* * * * *
15857022 CTTCATCCTGCTTTACTGCAACTTCAGAGAGATAAGGATTTGCTTTCGTAGCTTCAATATGATCC
1 CTTCATCTTGCTCTACTGCAACTTCAGAGAGATAAAGATTTGCTTTCGTAGCTTCAATCTGACCC
** * *
15857087 ACTTTAACTTCAGGGATATAAGATTTGATGTTGTAG
66 ACTGCAACTTCAGGGATATAAGATTTGGTTTTGTAG
* * * * * * ** *
15857123 CTTTATCTTGCTCCT-CTACAACTTAAGGGAGATAAAGATTTGCTTTTGTAGTTTCAATCAAACT
1 CTTCATCTTGCT-CTACTGCAACTTCAGAGAGATAAAGATTTGCTTTCGTAGCTTCAATCTGACC
* * *
15857187 CACTGCAATTTCAGGGGTATAGGATTTGGTTTTGTAG
65 CACTGCAACTTCAGGGATATAAGATTTGGTTTTGTAG
*
15857224 CTTCATCTTGCTCTACTGCAACTTCAGAGAGATAAAGATTTGCTTTCGTAGCTTCAATCTGATCC
1 CTTCATCTTGCTCTACTGCAACTTCAGAGAGATAAAGATTTGCTTTCGTAGCTTCAATCTGACCC
* * *
15857289 ACTGCAACTTTAGGTATATATGATTTG
66 ACTGCAACTTCAGGGATATAAGATTTG
15857316 ATATTGTCGC
Statistics
Matches: 243, Mismatches: 48, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
100 2 0.01
101 237 0.98
102 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (101 bp):
CTTCATCTTGCTCTACTGCAACTTCAGAGAGATAAAGATTTGCTTTCGTAGCTTCAATCTGACCC
ACTGCAACTTCAGGGATATAAGATTTGGTTTTGTAG
Found at i:15857165 original size:202 final size:202
Alignment explanation
Indices: 15856925--15857322 Score: 571
Period size: 202 Copynumber: 2.0 Consensus size: 202
15856915 TCATAACTTC
* * * **
15856925 ATCTTGCTCCACTGCAACTTCAGAGAGATAACGATTTGCTTCTGTAACTTCAATCCGACCCACTA
1 ATCTTGCTCCACTACAACTTAAGAGAGATAAAGATTTGCTTCTGTAACTTCAATCAAACCCACTA
*
15856990 CAACTTCAGGGATATAAGATTTGGTTTTGTAGCTTCATCCTGCTTTACTGCAACTTCAGAGAGAT
66 CAACTTCAGGGATATAAGATTTGGTTTTGTAGCTTCATCCTGCTCTACTGCAACTTCAGAGAGAT
* ** *
15857055 AAGGATTTGCTTTCGTAGCTTCAATATGATCCACTTTAACTTCAGGGATATAAGATTTGATGTTG
131 AAAGATTTGCTTTCGTAGCTTCAATATGATCCACTGCAACTTCAGGGATATAAGATTTGATATTG
15857120 TAGCTTT
196 TAGCTTT
* * * ** * *
15857127 ATCTTGCTCCTCTACAACTTAAGGGAGATAAAGATTTGCTTTTGTAGTTTCAATCAAACTCACTG
1 ATCTTGCTCCACTACAACTTAAGAGAGATAAAGATTTGCTTCTGTAACTTCAATCAAACCCACTA
* * * *
15857192 CAATTTCAGGGGTATAGGATTTGGTTTTGTAGCTTCATCTTGCTCTACTGCAACTTCAGAGAGAT
66 CAACTTCAGGGATATAAGATTTGGTTTTGTAGCTTCATCCTGCTCTACTGCAACTTCAGAGAGAT
* * * *
15857257 AAAGATTTGCTTTCGTAGCTTCAATCTGATCCACTGCAACTTTAGGTATATATGATTTGATATTG
131 AAAGATTTGCTTTCGTAGCTTCAATATGATCCACTGCAACTTCAGGGATATAAGATTTGATATTG
15857322 T
196 T
15857323 CGCTCACGTC
Statistics
Matches: 171, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
202 171 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (202 bp):
ATCTTGCTCCACTACAACTTAAGAGAGATAAAGATTTGCTTCTGTAACTTCAATCAAACCCACTA
CAACTTCAGGGATATAAGATTTGGTTTTGTAGCTTCATCCTGCTCTACTGCAACTTCAGAGAGAT
AAAGATTTGCTTTCGTAGCTTCAATATGATCCACTGCAACTTCAGGGATATAAGATTTGATATTG
TAGCTTT
Found at i:15858156 original size:18 final size:17
Alignment explanation
Indices: 15858129--15858163 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15858119 TTTCGACCTC
*
15858129 TTTTTTTTCTTTTTTTA
1 TTTTTTTTCTTCTTTTA
15858146 TTTTATTTTCTTCTTTTA
1 TTTT-TTTTCTTCTTTTA
15858164 AAAAAAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTTTCTTCTTTTA
Found at i:15866696 original size:19 final size:19
Alignment explanation
Indices: 15866670--15866861 Score: 231
Period size: 19 Copynumber: 10.1 Consensus size: 19
15866660 AAGACTCTGA
*
15866670 AGCGATACTGGCTCGTGAG
1 AGCGATACTGGCTCGTAAG
*
15866689 AACGATACTGGCTCGTAAG
1 AGCGATACTGGCTCGTAAG
*
15866708 AGCGATACTGGCTTGTAAG
1 AGCGATACTGGCTCGTAAG
* * *
15866727 AACGATATTGGCTCGTGAG
1 AGCGATACTGGCTCGTAAG
* *
15866746 AGCAATACTGGATCGTAAG
1 AGCGATACTGGCTCGTAAG
*
15866765 ACCGATACTGGCTCGTAAG
1 AGCGATACTGGCTCGTAAG
*
15866784 AGCAATACTGGCTCGTAAG
1 AGCGATACTGGCTCGTAAG
* *
15866803 AGCGATATTGGCTCGTAGG
1 AGCGATACTGGCTCGTAAG
* * *
15866822 AGAGTTACTAGCTCGTAAG
1 AGCGATACTGGCTCGTAAG
* *
15866841 AGCAATATTGGCTCGTAAG
1 AGCGATACTGGCTCGTAAG
15866860 AG
1 AG
15866862 TAATTTAATG
Statistics
Matches: 142, Mismatches: 31, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 142 1.00
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (19 bp):
AGCGATACTGGCTCGTAAG
Found at i:15870620 original size:21 final size:21
Alignment explanation
Indices: 15870589--15870639 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
15870579 TATAACATAC
*
15870589 AATATAATAATAACA-AAAATA
1 AATAAAATAATAACACAAAA-A
* *
15870610 AATGAAATAATCACACAAAAA
1 AATAAAATAATAACACAAAAA
15870631 AATAAAATA
1 AATAAAATA
15870640 CATTATAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.71, C:0.08, G:0.02, T:0.20
Consensus pattern (21 bp):
AATAAAATAATAACACAAAAA
Found at i:15870704 original size:15 final size:15
Alignment explanation
Indices: 15870684--15870715 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15870674 GATAGTAAAA
15870684 AATGATAATAATGAC
1 AATGATAATAATGAC
*
15870699 AATGATACTAATGAC
1 AATGATAATAATGAC
15870714 AA
1 AA
15870716 AAAATACGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.25
Consensus pattern (15 bp):
AATGATAATAATGAC
Found at i:15870893 original size:18 final size:18
Alignment explanation
Indices: 15870847--15870894 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
15870837 ATACTAGAAA
*
15870847 ATAAAATAA-AAATAAGC
1 ATAAAAAAATAAATAAGC
*
15870864 ATAAAAAGATAAATAAGC
1 ATAAAAAAATAAATAAGC
15870882 A-AAAATAAATAAA
1 ATAAAA-AAATAAA
15870895 AAATAATACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.73, C:0.04, G:0.06, T:0.17
Consensus pattern (18 bp):
ATAAAAAAATAAATAAGC
Found at i:15871243 original size:20 final size:19
Alignment explanation
Indices: 15871200--15871246 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
15871190 GGTAGAAATT
*
15871200 AAAAATGAATTAAAATTAA
1 AAAAATGAATTAAAATAAA
*
15871219 AAAAATGAAATTAAAAAAAA
1 AAAAATG-AATTAAAATAAA
15871239 TAAAAATG
1 -AAAAATG
15871247 CGAAAGGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 10 0.42
21 7 0.29
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.21
Consensus pattern (19 bp):
AAAAATGAATTAAAATAAA
Found at i:15872239 original size:23 final size:25
Alignment explanation
Indices: 15872187--15872241 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
15872177 TAATTGGGTA
*
15872187 TGGG-TATTTAAGTTAGTTGGGCTT
1 TGGGTTATTTAAGTTAGTTAGGCTT
15872211 TGGGTTATTTAAG-TAGTTAGG-TT
1 TGGGTTATTTAAGTTAGTTAGGCTT
15872234 TGGGTTAT
1 TGGGTTAT
15872242 GTAAATGGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 10 0.34
24 11 0.38
25 8 0.28
ACGTcount: A:0.18, C:0.02, G:0.33, T:0.47
Consensus pattern (25 bp):
TGGGTTATTTAAGTTAGTTAGGCTT
Found at i:15877772 original size:18 final size:17
Alignment explanation
Indices: 15877729--15877772 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
15877719 GATAAGGGAA
* *
15877729 AAGGAAAGCTTAAGGCC
1 AAGGAAAGCCTAAGGAC
15877746 AAGGCAAAGCCTAAGGAC
1 AAGG-AAAGCCTAAGGAC
15877764 AATGGAAAG
1 AA-GGAAAG
15877773 GCCAAGCCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 17 0.74
19 2 0.09
ACGTcount: A:0.45, C:0.16, G:0.30, T:0.09
Consensus pattern (17 bp):
AAGGAAAGCCTAAGGAC
Found at i:15880342 original size:24 final size:24
Alignment explanation
Indices: 15880313--15880361 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
15880303 AGACAAAATT
*
15880313 AGCTCTTACGAGCCTAAAAAGGTA
1 AGCTCTTACGAGCCCAAAAAGGTA
15880337 AGCTCTTACGAGCCCAAAAAGGTA
1 AGCTCTTACGAGCCCAAAAAGGTA
15880361 A
1 A
15880362 CCAATATACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.18
Consensus pattern (24 bp):
AGCTCTTACGAGCCCAAAAAGGTA
Found at i:15880371 original size:25 final size:24
Alignment explanation
Indices: 15880318--15880372 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
15880308 AAATTAGCTC
* * **
15880318 TTACGAGCCTAAAAAGGTAAGCTC
1 TTACGAGCCCAAAAAGGTAACCAA
15880342 TTACGAGCCCAAAAAGGTAACCAA
1 TTACGAGCCCAAAAAGGTAACCAA
15880366 TATACGA
1 T-TACGA
15880373 TGCTGCTCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (24 bp):
TTACGAGCCCAAAAAGGTAACCAA
Found at i:15882837 original size:24 final size:24
Alignment explanation
Indices: 15882802--15882848 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
15882792 ACAGAATTAA
*
15882802 CTCTTACGAGCCTAAAAAGGTTAG
1 CTCTTACAAGCCTAAAAAGGTTAG
*
15882826 CTCTTACAAGCCTAGAAAGGTTA
1 CTCTTACAAGCCTAAAAAGGTTA
15882849 AACAATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (24 bp):
CTCTTACAAGCCTAAAAAGGTTAG
Found at i:15890424 original size:29 final size:29
Alignment explanation
Indices: 15890368--15890424 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
15890358 TATAATTAAT
*
15890368 TTTATAGTAGAATATAATATATACTACAC
1 TTTATAGTAGAATATAATACATACTACAC
15890397 TTTATAGTAGAATATATATACATA-TACA
1 TTTATAGTAGAATATA-ATACATACTACA
15890425 TAATTAGCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (29 bp):
TTTATAGTAGAATATAATACATACTACAC
Found at i:15892160 original size:22 final size:23
Alignment explanation
Indices: 15892132--15892194 Score: 101
Period size: 22 Copynumber: 2.8 Consensus size: 23
15892122 TCCCTCTTAT
*
15892132 ATTTTATTTATTTATTTTGCATT
1 ATTTTATTTATTTATTTTGCATG
15892155 A-TTTATTTATTTATTTTGCATG
1 ATTTTATTTATTTATTTTGCATG
*
15892177 ATTTTAATTATTTATTTT
1 ATTTTATTTATTTATTTT
15892195 TATTTATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 21 0.57
23 16 0.43
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (23 bp):
ATTTTATTTATTTATTTTGCATG
Found at i:15892431 original size:14 final size:13
Alignment explanation
Indices: 15892388--15892461 Score: 64
Period size: 14 Copynumber: 5.6 Consensus size: 13
15892378 CCATTATCAT
15892388 TTTATTTAATTTA
1 TTTATTTAATTTA
*
15892401 TCTTA-TTCA-TT-
1 T-TTATTTAATTTA
15892412 TTTATTTAATTGTA
1 TTTATTTAATT-TA
15892426 TTTATTTAATTTA
1 TTTATTTAATTTA
* *
15892439 TCTTATTCATTTTTA
1 T-TTATTTA-ATTTA
15892454 TTTATTTA
1 TTTATTTA
15892462 TTTTGTCATT
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
10 3 0.06
11 4 0.08
12 3 0.06
13 8 0.16
14 26 0.53
15 5 0.10
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.68
Consensus pattern (13 bp):
TTTATTTAATTTA
Found at i:15892431 original size:38 final size:36
Alignment explanation
Indices: 15892388--15892464 Score: 136
Period size: 38 Copynumber: 2.1 Consensus size: 36
15892378 CCATTATCAT
15892388 TTTATTTAATTTATCTTATTCATTTTTATTTAATTGTA
1 TTTATTTAATTTATCTTATTCATTTTTATTT-ATT-TA
15892426 TTTATTTAATTTATCTTATTCATTTTTATTTATTTA
1 TTTATTTAATTTATCTTATTCATTTTTATTTATTTA
15892462 TTT
1 TTT
15892465 TGTCATTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 5 0.13
37 3 0.08
38 31 0.79
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.69
Consensus pattern (36 bp):
TTTATTTAATTTATCTTATTCATTTTTATTTATTTA
Found at i:15898205 original size:23 final size:23
Alignment explanation
Indices: 15898173--15898316 Score: 166
Period size: 23 Copynumber: 6.2 Consensus size: 23
15898163 ACATTAGAGC
* * * *
15898173 GCTCTTTGTTTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTTTCTGT
* **
15898196 GCTCTCTGTTTAGCACGGCTCT-T
1 GCTCTCTGATTAGCAC-TTTCTGT
15898219 GCTCTCTGTTATTAGCAC-TTCGTGT
1 GCTCTCTG--ATTAGCACTTTC-TGT
*
15898244 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTTTCTGT
15898267 GCTCTCTGATTAGCACTTTCTGT
1 GCTCTCTGATTAGCACTTTCTGT
15898290 GCTCTCTGATTAGCACTTTCTGT
1 GCTCTCTGATTAGCACTTTCTGT
15898313 GCTC
1 GCTC
15898317 AGTACTTTGT
Statistics
Matches: 107, Mismatches: 8, Indels: 12
0.84 0.06 0.09
Matches are distributed among these distances:
23 86 0.80
24 5 0.05
25 16 0.15
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.43
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTTTCTGT
Found at i:15898393 original size:62 final size:61
Alignment explanation
Indices: 15898262--15898393 Score: 135
Period size: 62 Copynumber: 2.1 Consensus size: 61
15898252 ATTAGCACTT
* * * * * *
15898262 TGTGTGCTCTCTGATTAGCACTTTCTGTGCTCTCTGATTAGCACTTTCTGTGCTCAGTACTT
1 TGTGTACTCTCTAATTAGCACTTTCTGTGCACTCTGACTAGCACTTTATGTGCTCA-TACTG
*
15898324 TGTGTACTCTCTAATTAGCACTTTGTGTGCACTCTGTTACCTAGCAC-TTATGTGCTC-T-CTG
1 TGTGTACTCTCTAATTAGCACTTTCTGTGCACTCTG--A-CTAGCACTTTATGTGCTCATACTG
15898385 TGTAGTACT
1 TGT-GTACT
15898394 TCGGTACTCT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
61 5 0.08
62 38 0.64
64 10 0.17
65 6 0.10
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.42
Consensus pattern (61 bp):
TGTGTACTCTCTAATTAGCACTTTCTGTGCACTCTGACTAGCACTTTATGTGCTCATACTG
Found at i:15898411 original size:85 final size:85
Alignment explanation
Indices: 15898235--15898402 Score: 189
Period size: 85 Copynumber: 2.0 Consensus size: 85
15898225 TGTTATTAGC
* * * * * *
15898235 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGCACTTTCTGTGCTCTCTGAT
1 ACTTTGTGTACTCTCTAATTAGCACTTTGTGTGCACTCTGACTAGCACTTTATGTGCTCTCTGAT
* * *
15898300 TAGCACTTTCTGTGCTCAGT
66 TAGCACTTTCGGTACTCACT
15898320 ACTTTGTGTACTCTCTAATTAGCACTTTGTGTGCACTCTGTTACCTAGCAC-TTATGTGCTCTCT
1 ACTTTGTGTACTCTCTAATTAGCACTTTGTGTGCACTCTG--A-CTAGCACTTTATGTGCTCTCT
*
15898384 G-TGTAGTAC-TTCGGTACTC
63 GAT-TAGCACTTTCGGTACTC
15898403 TCTGTTTGTT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
85 36 0.51
86 9 0.13
87 19 0.27
88 6 0.09
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.42
Consensus pattern (85 bp):
ACTTTGTGTACTCTCTAATTAGCACTTTGTGTGCACTCTGACTAGCACTTTATGTGCTCTCTGAT
TAGCACTTTCGGTACTCACT
Found at i:15903619 original size:52 final size:52
Alignment explanation
Indices: 15903538--15903777 Score: 268
Period size: 52 Copynumber: 4.6 Consensus size: 52
15903528 GTAAATGAAA
* * *
15903538 AAGGTCCAATGACTCTGTGTCATCGTGAGTATATGAATCCTTTACGAATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* * * *
15903590 AAGGTCCGATGGCTCTGTGTCATCATGAGTATATGAATCATTTACGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* * * *
15903642 GAGGTCCGATGACTAAGTGTCATTGTGAGTATATAAATCCTTTACGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* * * * * * *
15903694 GAGTTCCGATGACTATGTGTCATCGTAAGTGTATGATTCCTTTAAGGA--AC
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* *
15903744 AAGAGGCCTGATGACTATGTGTCAGCGTGAGTAT
1 AAG-GTCC-GATGACTATGTGTCATCGTGAGTAT
15903778 TAAAGGAAAA
Statistics
Matches: 158, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
50 3 0.02
51 2 0.01
52 153 0.97
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (52 bp):
AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
Found at i:15904432 original size:21 final size:21
Alignment explanation
Indices: 15904394--15904433 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15904384 GACTTGGGTT
* *
15904394 GTATCGGTAGTTGAATACTAA
1 GTATAGGTAGTTCAATACTAA
*
15904415 GTATAGGTAGTTCTATACT
1 GTATAGGTAGTTCAATACT
15904434 TTGAAGTATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.38
Consensus pattern (21 bp):
GTATAGGTAGTTCAATACTAA
Found at i:15912261 original size:52 final size:52
Alignment explanation
Indices: 15912183--15912365 Score: 195
Period size: 52 Copynumber: 3.5 Consensus size: 52
15912173 GAAAAACGTC
* * *
15912183 CGATGACTCTGTGTCATCGTAAGTATATGAATCCTTTACGGATTATGAGTTT
1 CGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTT
* * * * ** * *
15912235 CGATGACTAAGTGTCATCATGAGTATATAAATCTTTTACAAATTATAAGGTC
1 CGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTT
* * * * ** *
15912287 CGATGACTATGTGTCATTTGTGAGTGTATGATTCCTTTAAGGAACAAGAGGTT
1 CGATGACTATGTGTCA-TCGTGAGTATATGAATCCTTTACGGATTATGAGGTT
15912340 CGATGACTATGTGTCATCGTGAGTAT
1 CGATGACTATGTGTCATCGTGAGTAT
15912366 TAAAGGAAAA
Statistics
Matches: 102, Mismatches: 28, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
52 64 0.63
53 38 0.37
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (52 bp):
CGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTT
Found at i:15912363 original size:105 final size:103
Alignment explanation
Indices: 15912180--15912369 Score: 254
Period size: 105 Copynumber: 1.8 Consensus size: 103
15912170 AATGAAAAAC
* * ** * *
15912180 GTCCGATGACTCTGTGTCATCGTAAGTATATGAATCCTTTACGGATTATGAGTTTCGATGACTAA
1 GTCCGATGACTATGTGTCATCGTAAGTATATGAATCCTTTAAGGAACAAGAGGTTCGATGACTAA
15912245 GTGTCATCATGAGTATATAAATCTTTTACAAATTATAAG
66 GTGTCATCATGAGTAT-TAAATCTTTTACAAATTATAAG
* * * *
15912284 GTCCGATGACTATGTGTCATTTGTGAGTGTATGATTCCTTTAAGGAACAAGAGGTTCGATGACTA
1 GTCCGATGACTATGTGTCA-TCGTAAGTATATGAATCCTTTAAGGAACAAGAGGTTCGATGACTA
* *
15912349 TGTGTCATCGTGAGTATTAAA
65 AGTGTCATCATGAGTATTAAA
15912370 GGAAAATGGA
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
104 22 0.30
105 51 0.70
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.36
Consensus pattern (103 bp):
GTCCGATGACTATGTGTCATCGTAAGTATATGAATCCTTTAAGGAACAAGAGGTTCGATGACTAA
GTGTCATCATGAGTATTAAATCTTTTACAAATTATAAG
Found at i:15913021 original size:21 final size:23
Alignment explanation
Indices: 15912983--15913037 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 23
15912973 GACTTGGGTT
15912983 GTATCGGTAGTTAAATAC-T-AA
1 GTATCGGTAGTTAAATACTTGAA
**
15913004 GTATCGGTAGTTCTATACTTGGAA
1 GTATCGGTAGTTAAATACTT-GAA
15913028 GTATCGGTAG
1 GTATCGGTAG
15913038 ATTGTGATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 16 0.55
22 1 0.03
24 12 0.41
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (23 bp):
GTATCGGTAGTTAAATACTTGAA
Done.