Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 167 of 182
Found at i:51098416 original size:30 final size:30
Alignment explanation
Indices: 51098378--51098459 Score: 121
Period size: 30 Copynumber: 2.7 Consensus size: 30
51098368 GGGTAACCTC
51098378 GATATAATGTCAGCTTGTGTGAACAACTCT
1 GATATAATGTCAGCTTGTGTGAACAACTCT
* *
51098408 -ATTATAATGTCAGCTTGTATGAACAATTCT
1 GA-TATAATGTCAGCTTGTGTGAACAACTCT
*
51098438 GATATATTGTCAGCTTGTGTGA
1 GATATAATGTCAGCTTGTGTGA
51098460 GTAACTTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
29 1 0.02
30 44 0.96
31 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (30 bp):
GATATAATGTCAGCTTGTGTGAACAACTCT
Found at i:51099351 original size:23 final size:21
Alignment explanation
Indices: 51099299--51099358 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
51099289 AGTTGAATAT
51099299 GTTTAAATG-TTGAATGGTTG
1 GTTTAAATGATTGAATGGTTG
*
51099319 G-GTAATATGATATAGAATGGTTG
1 GTTTAA-ATGAT-T-GAATGGTTG
51099342 GTTTAAATGATTGAATG
1 GTTTAAATGATTGAATG
51099359 CTTGAATTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 6 0.18
22 2 0.06
23 15 0.45
24 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (21 bp):
GTTTAAATGATTGAATGGTTG
Found at i:51100770 original size:43 final size:43
Alignment explanation
Indices: 51100679--51100833 Score: 213
Period size: 43 Copynumber: 3.6 Consensus size: 43
51100669 GTTCCAATAC
* *
51100679 CGATTTGAGATTTCGTG-AAGACTATAGCTGAGCTATTGGCAT
1 CGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCAT
* * * *
51100721 TGATTTGAGATTTCGTGTAAGACCATAACTGGGCTGTTGACAT
1 CGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCAT
51100764 CGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCAT
1 CGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCAT
** *
51100807 CGATACGAGATTTCCATGTAAGACCAT
1 CGATTTGAGATTT-CGTGTAAGACCAT
51100834 GTTTGGGACA
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
42 16 0.16
43 70 0.71
44 12 0.12
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
CGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCAT
Found at i:51102290 original size:20 final size:19
Alignment explanation
Indices: 51102262--51102300 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
51102252 TTTAAATAAT
*
51102262 TTTTTATTTTAAAAGTTTTA
1 TTTTAATTTTAAAA-TTTTA
51102282 TTTTAATTTTAAAATTTTA
1 TTTTAATTTTAAAATTTTA
51102301 GGAATCAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTAATTTTAAAATTTTA
Found at i:51102798 original size:5 final size:5
Alignment explanation
Indices: 51102792--51102826 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
51102782 GTCGGATCGG
*
51102792 TTTGG TTTGAT TTTGT TTTGT TTTGT TTTGT TTTG
1 TTTGT TTTG-T TTTGT TTTGT TTTGT TTTGT TTTG
51102827 GGGCAATTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.03, C:0.00, G:0.23, T:0.74
Consensus pattern (5 bp):
TTTGT
Found at i:51107893 original size:20 final size:20
Alignment explanation
Indices: 51107857--51107894 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
51107847 AAACTATTTA
*
51107857 TCCCTTCACTTCTATTTTTT
1 TCCCTTCACATCTATTTTTT
51107877 TCCCTT-ACATCTCATTTT
1 TCCCTTCACATCT-ATTTT
51107895 ACTTTCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.13, C:0.32, G:0.00, T:0.55
Consensus pattern (20 bp):
TCCCTTCACATCTATTTTTT
Found at i:51108469 original size:11 final size:11
Alignment explanation
Indices: 51108439--51108469 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
51108429 TATTTCAATA
51108439 TTCTCTCAAAT
1 TTCTCTCAAAT
51108450 TTC-CTCAAAT
1 TTCTCTCAAAT
51108460 TTCTCTCAAA
1 TTCTCTCAAA
51108470 CTCCTCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:51110174 original size:30 final size:30
Alignment explanation
Indices: 51110138--51110229 Score: 98
Period size: 30 Copynumber: 3.1 Consensus size: 30
51110128 CGATGCAGGT
*
51110138 CCATCAACAACACCCACACAATCACTCGAC
1 CCATCAACAGCACCCACACAATCACTCGAC
* * *
51110168 CCATCAACAGCGCCCATACAATCACT-GGC
1 CCATCAACAGCACCCACACAATCACTCGAC
* * *
51110197 CCAGCAATAGCACCCACACAGTCAC-CGAGC
1 CCATCAACAGCACCCACACAATCACTCGA-C
51110227 CCA
1 CCA
51110230 ACACTTCAAC
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
29 23 0.46
30 27 0.54
ACGTcount: A:0.35, C:0.45, G:0.11, T:0.10
Consensus pattern (30 bp):
CCATCAACAGCACCCACACAATCACTCGAC
Found at i:51110221 original size:29 final size:30
Alignment explanation
Indices: 51110142--51110229 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 30
51110132 GCAGGTCCAT
* *
51110142 CAACAACACCCACACAATCACTCGACCCAT
1 CAACAGCACCCACACAATCACTCGACCCAG
* * *
51110172 CAACAGCGCCCATACAATCACT-GGCCCAG
1 CAACAGCACCCACACAATCACTCGACCCAG
* *
51110201 CAATAGCACCCACACAGTCAC-CGAGCCCA
1 CAACAGCACCCACACAATCACTCGA-CCCA
51110230 ACACTTCAAC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
29 23 0.50
30 23 0.50
ACGTcount: A:0.35, C:0.44, G:0.11, T:0.09
Consensus pattern (30 bp):
CAACAGCACCCACACAATCACTCGACCCAG
Found at i:51122147 original size:30 final size:30
Alignment explanation
Indices: 51122060--51122147 Score: 81
Period size: 30 Copynumber: 3.0 Consensus size: 30
51122050 TCCACCACTA
* * *
51122060 GTACATAGTACTTGGAAACTATAATCACTG
1 GTACATAGTACATGGAAACTGTAATCACCG
* * * * * *
51122090 GCACAGAGTGCCTGG-AATTG-AAACACCG
1 GTACATAGTACATGGAAACTGTAATCACCG
51122118 GTACATAGTACATGGAAACTGTAATCACCG
1 GTACATAGTACATGGAAACTGTAATCACCG
51122148 ACACTTAGTG
Statistics
Matches: 42, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
28 17 0.40
29 7 0.17
30 18 0.43
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (30 bp):
GTACATAGTACATGGAAACTGTAATCACCG
Found at i:51123152 original size:17 final size:17
Alignment explanation
Indices: 51123132--51123170 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
51123122 TTTGTATGTT
* *
51123132 TTATTTAACTTATTTTA
1 TTATTTAACATATATTA
51123149 TTATTTAACATATATTA
1 TTATTTAACATATATTA
51123166 TTATT
1 TTATT
51123171 AAATAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTTAACATATATTA
Found at i:51123198 original size:16 final size:16
Alignment explanation
Indices: 51123152--51123200 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
51123142 TATTTTATTA
*
51123152 TTTAACATAT-ATTAT
1 TTTAACATATAAATAT
51123167 TATTAA-ATA-AATATAT
1 T-TTAACATATAA-ATAT
51123183 TTTAACATATAAATAT
1 TTTAACATATAAATAT
51123199 TT
1 TT
51123201 AATGACAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
15 9 0.32
16 17 0.61
17 2 0.07
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTAACATATAAATAT
Found at i:51127210 original size:30 final size:30
Alignment explanation
Indices: 51127174--51127238 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
51127164 CAACTTAACA
*
51127174 AACAAATGCCTCTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
51127204 AACAAATACCTCTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
51127234 AACAA
1 AACAA
51127239 TAAAACAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.60, C:0.17, G:0.02, T:0.22
Consensus pattern (30 bp):
AACAAATACCTCTAAAATAATAACAAAATT
Found at i:51127281 original size:11 final size:11
Alignment explanation
Indices: 51127267--51127314 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
51127257 ATATCTAAAT
*
51127267 AATAATAACAA
1 AATAATAGCAA
*
51127278 AATAGTAGCAA
1 AATAATAGCAA
* *
51127289 CATAATAGTAA
1 AATAATAGCAA
*
51127300 AATAGTAGCAA
1 AATAATAGCAA
51127311 AATA
1 AATA
51127315 GGGAGAAAAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.60, C:0.08, G:0.10, T:0.21
Consensus pattern (11 bp):
AATAATAGCAA
Found at i:51127293 original size:22 final size:22
Alignment explanation
Indices: 51127268--51127310 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
51127258 TATCTAAATA
51127268 ATAATAACAAAATAGTAGCAAC
1 ATAATAACAAAATAGTAGCAAC
**
51127290 ATAATAGTAAAATAGTAGCAA
1 ATAATAACAAAATAGTAGCAA
51127311 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAATAACAAAATAGTAGCAAC
Found at i:51127315 original size:11 final size:11
Alignment explanation
Indices: 51127275--51127315 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
51127265 ATAATAATAA
51127275 CAAAATAGTAG
1 CAAAATAGTAG
* *
51127286 CAACATAATAG
1 CAAAATAGTAG
*
51127297 TAAAATAGTAG
1 CAAAATAGTAG
51127308 CAAAATAG
1 CAAAATAG
51127316 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:51127941 original size:51 final size:51
Alignment explanation
Indices: 51127886--51127991 Score: 194
Period size: 51 Copynumber: 2.1 Consensus size: 51
51127876 TATTTATCCC
51127886 AAAAATATATTATCAAATGGGATAAGTCACATTTGGTATCTGTACTTTCAT
1 AAAAATATATTATCAAATGGGATAAGTCACATTTGGTATCTGTACTTTCAT
* *
51127937 AAAAATATATTATCAAATTGGATAAGTTACATTTGGTATCTGTACTTTCAT
1 AAAAATATATTATCAAATGGGATAAGTCACATTTGGTATCTGTACTTTCAT
51127988 AAAA
1 AAAA
51127992 TGTCCAATGC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (51 bp):
AAAAATATATTATCAAATGGGATAAGTCACATTTGGTATCTGTACTTTCAT
Found at i:51128075 original size:63 final size:63
Alignment explanation
Indices: 51127970--51128100 Score: 183
Period size: 63 Copynumber: 2.1 Consensus size: 63
51127960 AAGTTACATT
* * * * * *
51127970 TGGTATCTGTACTTTCATAAAATGTCCAATGCGGTACCTGAACTATCTA-TTTGTGTTTTATTA
1 TGGTACCTATACTTTCATAAAATGTCCAATGCAGCACATGAACTATC-AGTATGTGTTTTATTA
*
51128033 TGGTACCTATACTTTCATAAAATGTCCAATGTAGCACATGAACTATCAGTATGTGTTTTATTA
1 TGGTACCTATACTTTCATAAAATGTCCAATGCAGCACATGAACTATCAGTATGTGTTTTATTA
51128096 TGGTA
1 TGGTA
51128101 TCTAATGTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 1 0.02
63 59 0.98
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.40
Consensus pattern (63 bp):
TGGTACCTATACTTTCATAAAATGTCCAATGCAGCACATGAACTATCAGTATGTGTTTTATTA
Found at i:51135255 original size:132 final size:132
Alignment explanation
Indices: 51135088--51136468 Score: 1859
Period size: 132 Copynumber: 10.5 Consensus size: 132
51135078 ACCAGAGAGA
* * * * * **
51135088 TAGAATTACTGGC-TCTAATATACTCCGCTGCAACCTCAGGGAGGTAAAATCTGCCATTTTTTAT
1 TAGAATTACTGGCTTC-AATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGAT
* * * * *
51135152 CTGCTTCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCCCAAGG
65 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGG
51135217 -AG
130 AAG
* * *
51135219 ATAGAATTACTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACTATCTTCGAT
1 -TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGAT
* *
51135284 TTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGG
65 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGG
51135349 AAG
130 AAG
* *
51135352 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATC
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATC
* * * *
51135417 TGCTCCACTACTGTTTAGGGAGACAATATATGAAATCTTCAATCTATTCCACTGCTGCCCAGGGA
66 TGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGA
51135482 AG
131 AG
* * * * *
51135484 TAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGTCGTCTTCGATC
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATC
* * * * * *
51135549 TACTTC-GT--TG-TCTATGCGAGAAGACAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCC
66 TGCTCCACTACTGCT-TA-G-G-G-AGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCC
*
51135610 AAGG-AG
126 AGGGAAG
*
51135616 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGAT
1 -TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGAT
* * * *
51135681 CTGCTCCACTACTGCTTAGGGAGATAATATCTGAAATCTTCAATCTATTCCATTGTTGCCTAGGG
65 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGG
*
51135746 AAA
130 AAG
* *
51135749 TAGAATTACTGGCTTCAATGTACTCCACTATAA-CTATAGGGAGGTAAAATCCGCCATCTTCGAT
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCT-CAGGGAGGTAAAATCCGCCATCTTCGAT
** * *
51135813 CTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAGTCTATTCCACTGCTGCCCAAGG
65 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGG
51135878 AAG
130 AAG
* * *
51135881 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATT
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATC
* * * * *
51135946 TGCTCCACTACTGTTTAGGGAGACAATATATGAAATCTTCAATCTATTACACTGCTGCCCAGGGA
66 TGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGA
51136011 AG
131 AG
* * * *
51136013 TAGAATTATTGGCTTCAATGTACTCCACTGTAA-CTATAGGGAGGTAAAATCCACCATCTTCAAT
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCT-CAGGGAGGTAAAATCCGCCATCTTCGAT
* * * *
51136077 TTGTTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAAGG
65 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGG
51136142 -AG
130 AAG
* * *
51136144 ATAGAATTACTGGCTTCAATGTACTCCACTGTAA-CTATAGGGAGGTAAAATCCACCATCTTCAA
1 -TAGAATTACTGGCTTCAATGTACTCCACTGTAACCT-CAGGGAGGTAAAATCCGCCATCTTCGA
* * *
51136208 TTTGTTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGG
64 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGG
51136273 GAAG
129 GAAG
* * *
51136277 TAGAATTACTGGCTTCAATGTACTCCACTGTAA-CTATAGGGAGGTAAAATCCACCATCTTCAAT
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCT-CAGGGAGGTAAAATCCGCCATCTTCGAT
* * *
51136341 TTGTTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGG
65 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGG
51136406 AAG
130 AAG
* * *
51136409 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTT
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTT
51136469 TAATCTACTT
Statistics
Matches: 1132, Mismatches: 98, Indels: 38
0.89 0.08 0.03
Matches are distributed among these distances:
128 1 0.00
129 4 0.00
130 1 0.00
131 6 0.01
132 998 0.88
133 114 0.10
134 2 0.00
135 1 0.00
136 4 0.00
137 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (132 bp):
TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATC
TGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGA
AG
Found at i:51135349 original size:44 final size:44
Alignment explanation
Indices: 51135169--51135349 Score: 111
Period size: 44 Copynumber: 4.1 Consensus size: 44
51135159 ACTACTGCTT
* * *
51135169 AGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCCC
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTGCCC
* * * * *
51135213 AAGGAGAT-AGA-AT-TACTAGCTTCAATGTACTCCACTG-TAACCTC
1 AGGGAGATAAGATCTGTA--ATCTTCAATCTACTCCACTGCT-GCC-C
* * ** * * * * **
51135257 AGGGAGGTAAAATCCACT-ATCTTCGATTTGCTCCACTACTGCTT
1 AGGGAGATAAGAT-CTGTAATCTTCAATCTACTCCACTGCTGCCC
*
51135301 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTGCCC
51135345 AGGGA
1 AGGGA
51135350 AGTAGAATTA
Statistics
Matches: 96, Mismatches: 31, Indels: 20
0.65 0.21 0.14
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 23 0.24
44 49 0.51
45 18 0.19
46 1 0.01
48 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTGCCC
Found at i:51135833 original size:44 final size:44
Alignment explanation
Indices: 51135654--51136399 Score: 137
Period size: 44 Copynumber: 17.0 Consensus size: 44
51135644 CTGTAACCAC
* *
51135654 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
* * * ** * * ** *
51135698 AGGGAGATAATATCTGAAATCTTCAATCTATTCCATTGTTGCCT
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
** * ** *** * *
51135742 AGGGAAATAGAAT-TACTGGCTTCAATGTACTCCACTA-TAACTAT
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACT-GCT-T
* *
51135786 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
* * * ** * * * **
51135830 AGGGAGGCAAGATCTGAAATCTTCAGTCTATTCCACTGCTGCCC
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
* * * ** *** * **
51135874 AAGGAAGTAGAAT-TACTGGCTTCAATGTACTCCACTGTAAC--CAC
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCAC--T-ACTGCTT
** * * *
51135918 AGGGAGGTAAAATCCGCCATCTTTGATTTGCTCCACTACTGTTT
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
** * ** ** * * * **
51135962 AGGGAGACAATATATGAAATCTTCAATCTATTACACTGCTGCCC
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
* * ****** * * *
51136006 AGGGAAGTAGAAT-TATTGGCTTCAATGTACTCCACT-GTAACTAT
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACT-GCT-T
* * **
51136050 AGGGAGGTAAAATCCACCATCTTCAATTTGTTCCACTACTGCTT
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
* * * ** * * **
51136094 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
* * * ** *** * * *
51136138 AAGGAGATAGAAT-TACTGGCTTCAATGTACTCCACT-GTAACTAT
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACT-GCT-T
* * **
51136182 AGGGAGGTAAAATCCACCATCTTCAATTTGTTCCACTACTGCTT
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
* * * ** * * **
51136226 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
* * ** *** * * *
51136270 AGGGAAGTAGAAT-TACTGGCTTCAATGTACTCCACT-GTAACTAT
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACT-GCT-T
* * **
51136314 AGGGAGGTAAAATCCACCATCTTCAATTTGTTCCACTACTGCTT
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
* * * ** * *
51136358 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
1 AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGC
51136400 CCAGGGAAGT
Statistics
Matches: 471, Mismatches: 209, Indels: 44
0.65 0.29 0.06
Matches are distributed among these distances:
42 6 0.01
43 81 0.17
44 294 0.62
45 85 0.18
46 5 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
AGGGAGGTAAAATCCGCCATCTTCAATCTACTCCACTACTGCTT
Found at i:51136294 original size:43 final size:44
Alignment explanation
Indices: 51136246--51136438 Score: 112
Period size: 44 Copynumber: 4.4 Consensus size: 44
51136236 GATCTGTAAT
51136246 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAAT-TACTGG
1 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATCTACTGG
* * * ** * * * ***
51136289 CTTCAATGTACTCCACTG-TAACTATAGGGAGGTAAAATCCACCAT
1 CTTCAATCTATTCCACTGCT-GC-CCAGGGAAGTAGAATCTACTGG
* * * ** *
51136334 CTTCAATTTGTTCCACTACTGCTTAGGG-AGATA-AGATCTGTAAT--
1 CTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGA-ATC--TACTGG
51136378 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAAT-TACTGG
1 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATCTACTGG
* *
51136421 CTTCAATGTACTCCACTG
1 CTTCAATCTATTCCACTG
51136439 TAACCACAGG
Statistics
Matches: 109, Mismatches: 29, Indels: 24
0.67 0.18 0.15
Matches are distributed among these distances:
41 3 0.03
42 1 0.01
43 35 0.32
44 48 0.44
45 20 0.18
46 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATCTACTGG
Found at i:51136406 original size:44 final size:44
Alignment explanation
Indices: 51136068--51136406 Score: 174
Period size: 44 Copynumber: 7.7 Consensus size: 44
51136058 AAAATCCACC
* * * *
51136068 ATCTTCAATTTGTTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTATTCCACTGCTGCCTAGGGAGATAAGATCTGTA
* * *
51136112 ATCTTCAATCTATTCCACTGCTGCCCAAGGAGAT-AGA-AT-TA
1 ATCTTCAATCTATTCCACTGCTGCCTAGGGAGATAAGATCTGTA
* * * * * * * ****
51136153 CTGGCTTCAATGTACTCCACTG-TAACTATAGGGAGGTAAAATCCACC
1 AT--CTTCAATCTATTCCACTGCT-GC-CTAGGGAGATAAGATCTGTA
* * * *
51136200 ATCTTCAATTTGTTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTATTCCACTGCTGCCTAGGGAGATAAGATCTGTA
* *
51136244 ATCTTCAATCTATTCCACTGCTGCCCAGGGA-AGT-AGA-AT-TA
1 ATCTTCAATCTATTCCACTGCTGCCTAGGGAGA-TAAGATCTGTA
* * * * * * * ****
51136285 CTGGCTTCAATGTACTCCACTG-TAACTATAGGGAGGTAAAATCCACC
1 AT--CTTCAATCTATTCCACTGCT-GC-CTAGGGAGATAAGATCTGTA
* * * *
51136332 ATCTTCAATTTGTTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTATTCCACTGCTGCCTAGGGAGATAAGATCTGTA
*
51136376 ATCTTCAATCTATTCCACTGCTGCCCAGGGA
1 ATCTTCAATCTATTCCACTGCTGCCTAGGGA
51136407 AGTAGAATTA
Statistics
Matches: 208, Mismatches: 69, Indels: 36
0.66 0.22 0.12
Matches are distributed among these distances:
41 6 0.03
42 4 0.02
43 41 0.20
44 119 0.57
45 34 0.16
46 2 0.01
47 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
ATCTTCAATCTATTCCACTGCTGCCTAGGGAGATAAGATCTGTA
Found at i:51137851 original size:14 final size:15
Alignment explanation
Indices: 51137832--51137869 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
51137822 AGCCTCTCCA
51137832 TTTTATTTTTCAT-T
1 TTTTATTTTTCATCT
51137846 TTTTA-TTTTCATCT
1 TTTTATTTTTCATCT
*
51137860 TTTCATTTTT
1 TTTTATTTTT
51137870 TCACATCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 7 0.33
14 10 0.48
15 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTATTTTTCATCT
Found at i:51137863 original size:21 final size:19
Alignment explanation
Indices: 51137831--51137870 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
51137821 TAGCCTCTCC
51137831 ATTTTATTTTTCATTTTTT
1 ATTTTATTTTTCATTTTTT
51137850 ATTTTCATCTTTTCATTTTTT
1 ATTTT-AT-TTTTCATTTTTT
51137871 CACATCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (19 bp):
ATTTTATTTTTCATTTTTT
Found at i:51138838 original size:19 final size:19
Alignment explanation
Indices: 51138814--51138853 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
51138804 GGTTTGGCAG
51138814 AAAAAATCCAAAAGAATGA
1 AAAAAATCCAAAAGAATGA
**
51138833 AAAAAATCGTAAAGAATGA
1 AAAAAATCCAAAAGAATGA
51138852 AA
1 AA
51138854 GAACATTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.07, G:0.12, T:0.12
Consensus pattern (19 bp):
AAAAAATCCAAAAGAATGA
Found at i:51140629 original size:301 final size:301
Alignment explanation
Indices: 51140087--51140688 Score: 1186
Period size: 301 Copynumber: 2.0 Consensus size: 301
51140077 TTATGAGGGA
51140087 GTACTAAATCTGGCACTAAACTCAGCTCTTTTGCGTCAATGCCTCGATAACTCTTAGTGACCTCC
1 GTACTAAATCTGGCACTAAACTCAGCTCTTTTGCGTCAATGCCTCGATAACTCTTAGTGACCTCC
51140152 ATTGCATTGAACTTCTCCTCGAGCCACCTACACCTTTCCTCTAACTGTTTCGGTAACTCCTTTAT
66 ATTGCATTGAACTTCTCCTCGAGCCACCTACACCTTTCCTCTAACTGTTTCGGTAACTCCTTTAT
51140217 TTTTTCCTTCTCAACCACTTCATCAAAGTCAGAAATGGCAGAGTTAACAGGATTATTTTCAGGAT
131 TTTTTCCTTCTCAACCACTTCATCAAAGTCAGAAATGGCAGAGTTAACAGGATTATTTTCAGGAT
* *
51140282 TAGAACTCGGCCCAGTTTGGAGGTTCGAAATACCAGCCCGAAACTGCTGAGGCATGATAGTGATA
196 TAGAACCCGGCCCAGTTTGGAGGTTCGAAATACCAGCCCGAAACTGCTGAGGCATGATAGTGACA
51140347 GTAGATTTGCGCGGGTATTCAGCTTGGGCTCGCATATGTCG
261 GTAGATTTGCGCGGGTATTCAGCTTGGGCTCGCATATGTCG
51140388 GTACTAAATCTGGCACTAAACTCAGCTCTTTTGCGTCAATGCCTCGATAACTCTTAGTGACCTCC
1 GTACTAAATCTGGCACTAAACTCAGCTCTTTTGCGTCAATGCCTCGATAACTCTTAGTGACCTCC
51140453 ATTGCATTGAACTTCTCCTCGAGCCACCTACACCTTTCCTCTAACTGTTTCGGTAACTCCTTTAT
66 ATTGCATTGAACTTCTCCTCGAGCCACCTACACCTTTCCTCTAACTGTTTCGGTAACTCCTTTAT
51140518 TTTTTCCTTCTCAACCACTTCATCAAAGTCAGAAATGGCAGAGTTAACAGGATTATTTTCAGGAT
131 TTTTTCCTTCTCAACCACTTCATCAAAGTCAGAAATGGCAGAGTTAACAGGATTATTTTCAGGAT
51140583 TAGAACCCGGCCCAGTTTGGAGGTTCGAAATACCAGCCCGAAACTGCTGAGGCATGATAGTGACA
196 TAGAACCCGGCCCAGTTTGGAGGTTCGAAATACCAGCCCGAAACTGCTGAGGCATGATAGTGACA
51140648 GTAGATTTGCGCGGGTATTCAGCTTGGGCTCGCATATGTCG
261 GTAGATTTGCGCGGGTATTCAGCTTGGGCTCGCATATGTCG
51140689 AGGGGTGAAA
Statistics
Matches: 299, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
301 299 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (301 bp):
GTACTAAATCTGGCACTAAACTCAGCTCTTTTGCGTCAATGCCTCGATAACTCTTAGTGACCTCC
ATTGCATTGAACTTCTCCTCGAGCCACCTACACCTTTCCTCTAACTGTTTCGGTAACTCCTTTAT
TTTTTCCTTCTCAACCACTTCATCAAAGTCAGAAATGGCAGAGTTAACAGGATTATTTTCAGGAT
TAGAACCCGGCCCAGTTTGGAGGTTCGAAATACCAGCCCGAAACTGCTGAGGCATGATAGTGACA
GTAGATTTGCGCGGGTATTCAGCTTGGGCTCGCATATGTCG
Found at i:51141048 original size:19 final size:19
Alignment explanation
Indices: 51141024--51141070 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
51141014 AACTATGTTT
*
51141024 AATGCATATG-ATGTAATG
1 AATGCATATGCATGAAATG
*
51141042 AAATGCAAATGCATGAAATG
1 -AATGCATATGCATGAAATG
51141062 AATGCATAT
1 AATGCATAT
51141071 AGAGACGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (19 bp):
AATGCATATGCATGAAATG
Found at i:51144296 original size:148 final size:146
Alignment explanation
Indices: 51144027--51144317 Score: 338
Period size: 148 Copynumber: 2.0 Consensus size: 146
51144017 GTCAAATTTT
*
51144027 AACAATGATTTTTTAATCACTATTATTAAATGTGTTTGTTAATTTAAATATCTTTCATACTTATC
1 AACAATGATTTTTTAATCACTATTATTAAATGTATTTGTTAATTTAAATATCTTTCATACTTATC
*** **
51144092 ATGATGTATTATTATAATTGTTGTATGTTATTCTATTTTTTAAATTTTTTTAAATTAAAATTATA
66 ATGATGTATTATTATAATTGTTGTATGTTATTCTATACCTT--ATTTTTCCAAATTAAAATTATA
*
51144157 GTTAATTTTCTTAATGTC
129 GTTAACTTTCTTAATGTC
* * * * *
51144175 AACAATTATTTTTTAATCACTATTATTAAATTTATCTAATAATTTAGTTTAAATATCTTTCATAT
1 AACAATGATTTTTTAATCACTATTATTAAATGTAT-T--T--GTTAATTTAAATATCTTTCATAC
* * *
51144240 TTATCATGA-GCTATTATTATAATTGTTTTATGTTGTT-T-TACCTT-TTTTTCCAAATTAACAT
61 TTATCATGATG-TATTATTATAATTGTTGTATGTTATTCTATACCTTATTTTTCCAAATTAAAAT
*
51144301 TATAGTTTACTTTCTTA
125 TATAGTTAACTTTCTTA
51144318 TATAGTATAT
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
148 61 0.50
149 1 0.01
151 4 0.03
152 2 0.02
153 53 0.44
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (146 bp):
AACAATGATTTTTTAATCACTATTATTAAATGTATTTGTTAATTTAAATATCTTTCATACTTATC
ATGATGTATTATTATAATTGTTGTATGTTATTCTATACCTTATTTTTCCAAATTAAAATTATAGT
TAACTTTCTTAATGTC
Found at i:51145101 original size:30 final size:30
Alignment explanation
Indices: 51145042--51145101 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
51145032 CAGAATAGGA
* *
51145042 TAGAGCAAAACATAAAAAAATAGATCAGAG
1 TAGAGCAAAACATAAAAAAACAGAACAGAG
* * *
51145072 TAGAGCAGAACATAATAAAGCAGAACAGAG
1 TAGAGCAAAACATAAAAAAACAGAACAGAG
51145102 CATGTATGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.57, C:0.12, G:0.20, T:0.12
Consensus pattern (30 bp):
TAGAGCAAAACATAAAAAAACAGAACAGAG
Found at i:51151383 original size:19 final size:21
Alignment explanation
Indices: 51151332--51151389 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
51151322 GGTGGATCAA
*
51151332 CTCTTACGAGCTTTTGTTAAG
1 CTCTTACGAGCTTCTGTTAAG
*
51151353 CTCTTACGAGCTTCTGTTCAG
1 CTCTTACGAGCTTCTGTTAAG
51151374 CT-TT-CGAGCTTCTGTT
1 CTCTTACGAGCTTCTGTT
51151390 GGTGTATTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.34
20 2 0.06
21 21 0.60
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (21 bp):
CTCTTACGAGCTTCTGTTAAG
Found at i:51153214 original size:24 final size:26
Alignment explanation
Indices: 51153187--51153238 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
51153177 TTTATTTCAG
*
51153187 TAATAATGTATTTT-TTT-ATACAAT
1 TAATAATATATTTTATTTCATACAAT
*
51153211 TAATAATATATTTTATTTCATATAAT
1 TAATAATATATTTTATTTCATACAAT
51153237 TA
1 TA
51153239 TTGCAATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.54
25 3 0.12
26 8 0.33
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (26 bp):
TAATAATATATTTTATTTCATACAAT
Found at i:51156402 original size:10 final size:10
Alignment explanation
Indices: 51156387--51156414 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
51156377 AAGCCGTGTT
51156387 GATTTCACAG
1 GATTTCACAG
51156397 GATTTCACAG
1 GATTTCACAG
51156407 GATTTCAC
1 GATTTCAC
51156415 CCAGAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (10 bp):
GATTTCACAG
Found at i:51156767 original size:31 final size:31
Alignment explanation
Indices: 51156732--51156794 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
51156722 ACGTAATACT
51156732 TAGTTTCTTGTTCTCAATTATGTGTGATTAA
1 TAGTTTCTTGTTCTCAATTATGTGTGATTAA
*
51156763 TAGTTTCTTGTTCTCAATTATGTGTGCTTAA
1 TAGTTTCTTGTTCTCAATTATGTGTGATTAA
51156794 T
1 T
51156795 TCTTGGTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.52
Consensus pattern (31 bp):
TAGTTTCTTGTTCTCAATTATGTGTGATTAA
Found at i:51160069 original size:17 final size:18
Alignment explanation
Indices: 51160043--51160094 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
51160033 ATTAACTCTA
*
51160043 TTAAATAATAAATGATATTT
1 TTAAATAAT--ATAATATTT
*
51160063 TTAAATAATATAATTTTT
1 TTAAATAATATAATATTT
51160081 TTAAAATAATATAA
1 TT-AAATAATATAA
51160095 AGAATAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 9 0.31
19 11 0.38
20 9 0.31
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TTAAATAATATAATATTT
Found at i:51162631 original size:7 final size:7
Alignment explanation
Indices: 51162619--51162644 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
51162609 GAAATTAATA
51162619 TTAAAAT
1 TTAAAAT
51162626 TTAAAAT
1 TTAAAAT
51162633 TTAAAAT
1 TTAAAAT
51162640 TTAAA
1 TTAAA
51162645 TCAAACTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TTAAAAT
Found at i:51166799 original size:21 final size:22
Alignment explanation
Indices: 51166775--51166825 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
51166765 ATATGCTCAG
* *
51166775 TATGATCTGTGTTATGATAA-T
1 TATGATCTGTATTATAATAAGT
*
51166796 TATGACCTGTATTATAATAAGT
1 TATGATCTGTATTATAATAAGT
51166818 T-TGATCTG
1 TATGATCTG
51166826 AATCTATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (22 bp):
TATGATCTGTATTATAATAAGT
Found at i:51168166 original size:3 final size:3
Alignment explanation
Indices: 51168158--51168200 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
51168148 ATAAATTTCA
*
51168158 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
51168201 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:51170031 original size:19 final size:20
Alignment explanation
Indices: 51169991--51170034 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
51169981 GTCTCTTTAG
* *
51169991 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
51170010 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
51170029 GCATTA
1 GCATTA
51170035 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:51172100 original size:7 final size:7
Alignment explanation
Indices: 51172098--51172167 Score: 54
Period size: 7 Copynumber: 9.9 Consensus size: 7
51172088 AAAAAATAAA
51172098 AAAAAAT
1 AAAAAAT
*
51172105 CAAAAAT
1 AAAAAAT
*
51172112 CAAAAAT
1 AAAAAAT
*
51172119 TAAAAAT
1 AAAAAAT
51172126 AAAAAAAT
1 -AAAAAAT
51172134 CAAAAAAAT
1 --AAAAAAT
*
51172143 CAAAAA-
1 AAAAAAT
*
51172149 AATAAA-
1 AAAAAAT
51172155 AAAAAAT
1 AAAAAAT
51172162 AAAAAA
1 AAAAAA
51172168 AATCAAAGTC
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
6 9 0.17
7 30 0.57
8 6 0.11
9 8 0.15
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:51172102 original size:9 final size:9
Alignment explanation
Indices: 51172088--51172170 Score: 71
Period size: 9 Copynumber: 8.8 Consensus size: 9
51172078 GTTCAAACTC
51172088 AAAAAATAAA
1 AAAAAAT-AA
51172098 AAAAAATCAA
1 AAAAAAT-AA
51172108 AAATCAAA-AA
1 AAA--AAATAA
*
51172118 TTAAAAAT-A
1 -AAAAAATAA
*
51172127 AAAAAATCA
1 AAAAAATAA
*
51172136 AAAAAATCA
1 AAAAAATAA
51172145 AAAAAATAAA
1 AAAAAAT-AA
51172155 AAAAAATAA
1 AAAAAATAA
51172164 AAAAAAT
1 AAAAAAT
51172171 CAAAGTCAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
8 6 0.10
9 30 0.48
10 22 0.35
11 2 0.03
12 3 0.05
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAAAATAA
Found at i:51172118 original size:14 final size:15
Alignment explanation
Indices: 51172097--51172160 Score: 62
Period size: 14 Copynumber: 4.3 Consensus size: 15
51172087 CAAAAAATAA
51172097 AAAAAAATCAAAAAT
1 AAAAAAATCAAAAAT
* *
51172112 -CAAAAATTAAAAAT
1 AAAAAAATCAAAAAT
51172126 AAAAAAATCAAAAAAAT
1 AAAAAAATC--AAAAAT
51172143 CAAAAAAAT-AAAAA-
1 -AAAAAAATCAAAAAT
51172157 AAAA
1 AAAA
51172161 TAAAAAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 4 0.10
14 12 0.29
15 11 0.27
17 6 0.15
18 8 0.20
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAAAAATCAAAAAT
Found at i:51174573 original size:25 final size:25
Alignment explanation
Indices: 51174527--51174576 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
51174517 CAGTTAAAAA
* * *
51174527 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
51174552 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
51174577 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:51174611 original size:125 final size:125
Alignment explanation
Indices: 51174402--51175040 Score: 1260
Period size: 125 Copynumber: 5.1 Consensus size: 125
51174392 CAATTCAAAC
* *
51174402 GATTAAAGCCACCTCGGTGAATCTTGATTAAAGCTACAATAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
51174467 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
51174527 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
51174592 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
51174652 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
51174717 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
51174777 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
51174842 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
51174902 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
51174967 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
51175027 GATTAAAGCCACAT
1 GATTAAAGCCACAT
51175041 NNNNNNNNNN
Statistics
Matches: 512, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 512 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (125 bp):
GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
Found at i:51174698 original size:25 final size:25
Alignment explanation
Indices: 51174652--51174701 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
51174642 CAGTTAAAAA
* * *
51174652 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
51174677 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
51174702 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:51174823 original size:25 final size:25
Alignment explanation
Indices: 51174777--51174826 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
51174767 CAGTTAAAAA
* * *
51174777 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
51174802 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
51174827 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:51174948 original size:25 final size:25
Alignment explanation
Indices: 51174902--51174951 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
51174892 CAGTTAAAAA
* * *
51174902 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
51174927 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
51174952 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:51176800 original size:110 final size:110
Alignment explanation
Indices: 51176607--51177010 Score: 688
Period size: 110 Copynumber: 3.7 Consensus size: 110
51176597 CAAAAAAGAA
51176607 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
51176672 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
51176717 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
51176782 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
* *
51176827 AAAAATTTCAAAACAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* * * *
51176892 GGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATA-CC-CCTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
* * *
51176935 CAAAAATTTCAAAATAAGGCAATGGTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCT
1 -AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
51176999 GGGTTTCGATTT
65 GGGTGTCGATTT
51177011 CTCGTTTATC
Statistics
Matches: 281, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
108 31 0.11
109 43 0.15
110 207 0.74
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (110 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
Found at i:51178932 original size:22 final size:20
Alignment explanation
Indices: 51178914--51178984 Score: 76
Period size: 22 Copynumber: 3.6 Consensus size: 20
51178904 ACCAAAAACT
51178914 TATTTTAAAAATTAAAAAAA
1 TATTTTAAAAATTAAAAAAA
* **
51178934 GATTTTAAAAGTATTTTAAAAA
1 TATTTTAAAA--ATTAAAAAAA
51178956 TATTTT-AAAATT-AAAAAA
1 TATTTTAAAAATTAAAAAAA
51178974 T-TTTTAAAAAT
1 TATTTTAAAAAT
51178985 ATTTTAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.09
18 11 0.26
19 3 0.07
20 9 0.21
21 3 0.07
22 13 0.30
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
TATTTTAAAAATTAAAAAAA
Found at i:51178949 original size:11 final size:11
Alignment explanation
Indices: 51178930--51178965 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
51178920 AAAAATTAAA
51178930 AAAAG-ATTTT
1 AAAAGTATTTT
51178940 AAAAGTATTTT
1 AAAAGTATTTT
*
51178951 AAAAATATTTT
1 AAAAGTATTTT
51178962 AAAA
1 AAAA
51178966 TTAAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 5 0.21
11 19 0.79
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:51178971 original size:17 final size:17
Alignment explanation
Indices: 51178949--51179000 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
51178939 TAAAAGTATT
51178949 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
51178966 TTAAAAA-A-TTT----
1 TTAAAAATATTTTAAAA
51178977 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
51178994 TTAAAAA
1 TTAAAAA
51179001 AATAAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
11 7 0.24
12 1 0.03
13 3 0.10
15 3 0.10
16 1 0.03
17 14 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:51178978 original size:28 final size:28
Alignment explanation
Indices: 51178947--51179001 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
51178937 TTTAAAAGTA
51178947 TTTTAAAAATATTTTAAAATTAAAAAAT
1 TTTTAAAAATATTTTAAAATTAAAAAAT
51178975 TTTTAAAAATATTTTAAAATTAAAAAA
1 TTTTAAAAATATTTTAAAATTAAAAAA
51179002 ATAAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
TTTTAAAAATATTTTAAAATTAAAAAAT
Found at i:51178994 original size:10 final size:10
Alignment explanation
Indices: 51178930--51178994 Score: 55
Period size: 11 Copynumber: 6.5 Consensus size: 10
51178920 AAAAATTAAA
*
51178930 AAAAGATTTT
1 AAAATATTTT
51178940 AAAAGTATTTT
1 AAAA-TATTTT
51178951 AAAAATATTTT
1 -AAAATATTTT
**
51178962 -AAA-ATTAA
1 AAAATATTTT
51178970 AAAAT-TTTT
1 AAAATATTTT
51178979 AAAAATATTTT
1 -AAAATATTTT
51178990 AAAAT
1 AAAAT
51178995 TAAAAAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
8 3 0.07
9 8 0.18
10 14 0.32
11 15 0.34
12 4 0.09
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (10 bp):
AAAATATTTT
Found at i:51190329 original size:20 final size:19
Alignment explanation
Indices: 51190291--51190338 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
51190281 TTATGTATAT
*
51190291 TTTAATTAATCATATTTTA
1 TTTAATTAATCATAATTTA
*
51190310 GTTTAATTAATCTTAATTTA
1 -TTTAATTAATCATAATTTA
*
51190330 CTTAATTAA
1 TTTAATTAA
51190339 GCTTGACTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTAATTAATCATAATTTA
Found at i:51192592 original size:22 final size:22
Alignment explanation
Indices: 51192550--51192592 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
51192540 TTCTATTGTT
*
51192550 TTGCTACCATTTTGTTATTATA
1 TTGCTACCATTTTATTATTATA
* *
51192572 TTGCTACTATTTTATTGTTAT
1 TTGCTACCATTTTATTATTAT
51192593 TATTTGGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (22 bp):
TTGCTACCATTTTATTATTATA
Found at i:51203166 original size:113 final size:113
Alignment explanation
Indices: 51202957--51203276 Score: 360
Period size: 113 Copynumber: 2.8 Consensus size: 113
51202947 TATGGGAAAA
* * ** * *
51202957 CGCCGCAAAATATCCTAACCAAAGCGCACCGTTTTGGTCTTG-GTGTATGTTACAGTTAGTGGCG
1 CGCCGCAAAATATCCTAACCAAAACGCA-AGTTTTGGTCTTGAG-GTATACTAGAATTAGTGGCG
* * * *
51203021 CTTAAGGGAAAACGTCGCTAAAGCATAATATTAGCGGCA-TTTTGTGAGAAG
64 C-AAAGGGAAAACGCCGCTAAAGCATACTATTAGCGGCACGTTTG-GAGAAG
*
51203072 CGCCGCAAAATATCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATACTAGAATTAGTGGCGC
1 CGCCGCAAAATATCCTAACCAAAACGCA-AGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCGC
* *
51203136 AAAGGGAACACGCCGCTAAGGCATACTATTAGCGGCACGTTTGGAGAAG
65 AAAGGGAAAACGCCGCTAAAGCATACTATTAGCGGCACGTTTGGAGAAG
* * * * *
51203185 CGCCGCAAAGTTTCGTAACCAAAACGCAACGTTTTTGTCTTGATGTATAC-AGTAATTAGTGGCG
1 CGCCGCAAAATATCCTAACCAAAACGCAA-GTTTTGGTCTTGAGGTATACTAG-AATTAGTGGCG
**
51203249 CATACTGGAAAACGCCGCTAAAGCATAC
64 CA-AAGGGAAAACGCCGCTAAAGCATAC
51203277 AAAATATGTT
Statistics
Matches: 176, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
112 1 0.01
113 66 0.38
114 60 0.34
115 49 0.28
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (113 bp):
CGCCGCAAAATATCCTAACCAAAACGCAAGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCA
AAGGGAAAACGCCGCTAAAGCATACTATTAGCGGCACGTTTGGAGAAG
Found at i:51203316 original size:199 final size:200
Alignment explanation
Indices: 51203077--51203475 Score: 545
Period size: 200 Copynumber: 2.0 Consensus size: 200
51203067 AGAAGCGCCG
51203077 CAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGC-AAAGG
1 CAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCTAAAGG
* * * *
51203141 GA-ACACGCCGCTAAGGCATACTATTAGCGGCACGTTTGGAGAAGCGCCGCAAAGTTTCGTAACC
66 GAGA-ACGCCGCTAAAGCATACTATTAGCGGCACGTTTGGAGAAGCGCCGCAAAATATAGTAACC
** * *
51203205 AAAACGCAACGTTTTTGTCTTGATGTATACAGTAATTAGTGGCG-CATACTG-GAAAACGCCGCT
130 AAAACGCAACGTTTAAGTCTTGATGTATACAGGAATTAGTGGCGTC-CAC-GAGAAAACGCCGCT
51203268 AAAGCATA
193 AAAGCATA
* * * * * *
51203276 CAAAATATGTTCACCAAAACGCAGAGTTTTGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGG
1 CAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCTAAAGG
** * *
51203341 GAGAACGCCGCTAAAGCATACTATTAGCGGCGTGTTTTGAGAAGCGCCGCAAAATATATTAACCA
66 GAGAACGCCGCTAAAGCATACTATTAGCGGCACGTTTGGAGAAGCGCCGCAAAATATAGTAACCA
* * * *
51203406 AAACGTAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCGTCCACGAGAAATCGCCGCTAAA
131 AAACGCAACGTTTAAGTCTTGATGTATACAGGAATTAGTGGCGTCCACGAGAAAACGCCGCTAAA
51203471 GCATA
196 GCATA
51203476 GTATTAGCGG
Statistics
Matches: 174, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
199 56 0.32
200 116 0.67
201 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (200 bp):
CAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCTAAAGG
GAGAACGCCGCTAAAGCATACTATTAGCGGCACGTTTGGAGAAGCGCCGCAAAATATAGTAACCA
AAACGCAACGTTTAAGTCTTGATGTATACAGGAATTAGTGGCGTCCACGAGAAAACGCCGCTAAA
GCATA
Found at i:51203348 original size:85 final size:86
Alignment explanation
Indices: 51203202--51203361 Score: 229
Period size: 85 Copynumber: 1.9 Consensus size: 86
51203192 AAGTTTCGTA
*
51203202 ACCAAAACGCAACGTTTTTGTCTTGATGTATACAGTAATTAGTGGCGCATACTGGAAAACGCCGC
1 ACCAAAACGCAACGTTTTTGTCTTGAGGTATACAGTAATTAGTGGCGCATACTGGAAAACGCCGC
51203267 TAAAGCATACAAAATATGTTC
66 TAAAGCATACAAAATATGTTC
* * *
51203288 ACCAAAACGCAGA-G-TTTTGTCTTGAGGTATATTAG-AATTAGTGGCGCTTA-TGGGAGAACGC
1 ACCAAAACGCA-ACGTTTTTGTCTTGAGGTATA-CAGTAATTAGTGGCGCATACT-GGAAAACGC
51203349 CGCTAAAGCATAC
63 CGCTAAAGCATAC
51203362 TATTAGCGGC
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
84 1 0.01
85 51 0.76
86 14 0.21
87 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (86 bp):
ACCAAAACGCAACGTTTTTGTCTTGAGGTATACAGTAATTAGTGGCGCATACTGGAAAACGCCGC
TAAAGCATACAAAATATGTTC
Found at i:51203446 original size:115 final size:114
Alignment explanation
Indices: 51203276--51203533 Score: 333
Period size: 115 Copynumber: 2.3 Consensus size: 114
51203266 CTAAAGCATA
* * * * * *
51203276 CAAAATATGTTCACCAAAACGCAGAGTTTTGTCTTGAGGTATATTAGAATTAGTGGCG-CTTATG
1 CAAAATATATTAACCAAAACGCAGAGTTTAGTCTTGAGGTATACTAGAATTAGTGGCGTC-CACG
*
51203340 GGAGAA-CGCCGCTAAAGCATACTATTAGCGGCG-TGTTTTGAGAAGCGCCG
65 AGA-AATCGCCGCTAAAGCATACTATTAGCGGCGCT-TTTTGAGAAGCGCCG
* * * *
51203390 CAAAATATATTAACCAAAACGTAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCGTCCACG
1 CAAAATATATTAACCAAAACGCAGAGTTT-AGTCTTGAGGTATACTAGAATTAGTGGCGTCCACG
*
51203455 AGAAATCGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTGAGAAGCGCCG
65 AGAAATCGCCGCTAAAGCATACTATTAGCGGCGCTTTTTGAGAAGCGCCG
* *
51203505 GAAAATATCTTAACCAAAACGCAGAGTTT
1 CAAAATATATTAACCAAAACGCAGAGTTT
51203534 TGTTCTTAAC
Statistics
Matches: 124, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
114 27 0.22
115 95 0.77
116 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (114 bp):
CAAAATATATTAACCAAAACGCAGAGTTTAGTCTTGAGGTATACTAGAATTAGTGGCGTCCACGA
GAAATCGCCGCTAAAGCATACTATTAGCGGCGCTTTTTGAGAAGCGCCG
Found at i:51203602 original size:7 final size:7
Alignment explanation
Indices: 51203590--51203675 Score: 50
Period size: 7 Copynumber: 12.0 Consensus size: 7
51203580 TTATTGTATT
51203590 TGGTTTA
1 TGGTTTA
51203597 TGGTTTA
1 TGGTTTA
51203604 TGGTTTAA
1 TGGTTT-A
* *
51203612 AGG-TTG
1 TGGTTTA
*
51203618 GGGTTTA
1 TGGTTTA
*
51203625 AGGTTTA
1 TGGTTTA
51203632 GTGG-TTA
1 -TGGTTTA
*
51203639 TGTGTTAA
1 TG-GTTTA
*
51203647 GGGTTTA
1 TGGTTTA
*
51203654 TGATTTTA
1 TG-GTTTA
*
51203662 GGGTTTA
1 TGGTTTA
51203669 TGGTTTA
1 TGGTTTA
51203676 CAGTTTAGAT
Statistics
Matches: 59, Mismatches: 14, Indels: 12
0.69 0.16 0.14
Matches are distributed among these distances:
6 4 0.07
7 42 0.71
8 13 0.22
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.49
Consensus pattern (7 bp):
TGGTTTA
Found at i:51204460 original size:14 final size:15
Alignment explanation
Indices: 51204441--51204475 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
51204431 ACACTTGTAT
*
51204441 GGATTTAGGGTTT-G
1 GGATTTAAGGTTTAG
51204455 GGATTTAAGGTTTAG
1 GGATTTAAGGTTTAG
51204470 GGATTT
1 GGATTT
51204476 TGGGGTCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (15 bp):
GGATTTAAGGTTTAG
Found at i:51206343 original size:12 final size:12
Alignment explanation
Indices: 51206326--51206352 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
51206316 TTTTACTTCA
51206326 TTTAACAGAATG
1 TTTAACAGAATG
51206338 TTTAACAGAATG
1 TTTAACAGAATG
51206350 TTT
1 TTT
51206353 TACTTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (12 bp):
TTTAACAGAATG
Found at i:51207170 original size:210 final size:211
Alignment explanation
Indices: 51206807--51207227 Score: 801
Period size: 210 Copynumber: 2.0 Consensus size: 211
51206797 AATCCATTTG
51206807 GTGCTTATAAAATTTAGACTATTAAGCCTTCACCTTTAAATTTGATTTTTAAAAATAAAATAATA
1 GTGCTTATAAAATTTAGACTATTAAGCCTTCACCTTTAAATTTGATTTTTAAAAATAAAATAATA
51206872 TATATATATTTGTTTAATAAATTATTTTTGTTGTGTAGGTGTAATTCCACAATAAATTGGTAATC
66 TATATATATTTGTTTAATAAATTATTTTTGTTGTGTAGGTGTAATTCCACAATAAATTGGTAATC
*
51206937 TAGCACAGTTGAAATATCTTTATTTATCTTATAATTCTCTAACAGGTATTATATTACATTTCTTC
131 TAGCACAGTTGAAATATCTTTATTTATCTTATAATTCTCTAACAGGTATTATATTACAATTCTTC
51207002 TCTATATATGCTCAGT
196 TCTATATATGCTCAGT
51207018 GTGCTTATAAAATTTAGACTATTAAGCCTTCACCTTTAAATTTGATTTTTAAAAAGTAAAAT-A-
1 GTGCTTATAAAATTTAGACTATTAAGCCTTCACCTTTAAATTTGATTTTTAAAAA-TAAAATAAT
51207081 ATATATATATTTGTTTAATAAATTATTTTTGTTGTGTAGGTGTAATTCCACAATAAATTGGTAAT
65 ATATATATATTTGTTTAATAAATTATTTTTGTTGTGTAGGTGTAATTCCACAATAAATTGGTAAT
*
51207146 CTAGCACAGTTGAAATATCTTTATTTATCTTATAATTCTCTAACATGTATTATATTACAATTCTT
130 CTAGCACAGTTGAAATATCTTTATTTATCTTATAATTCTCTAACAGGTATTATATTACAATTCTT
51207211 CTCTATATATGCTCAGT
195 CTCTATATATGCTCAGT
51207228 TTCATGATTG
Statistics
Matches: 207, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
210 145 0.70
211 56 0.27
212 6 0.03
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.44
Consensus pattern (211 bp):
GTGCTTATAAAATTTAGACTATTAAGCCTTCACCTTTAAATTTGATTTTTAAAAATAAAATAATA
TATATATATTTGTTTAATAAATTATTTTTGTTGTGTAGGTGTAATTCCACAATAAATTGGTAATC
TAGCACAGTTGAAATATCTTTATTTATCTTATAATTCTCTAACAGGTATTATATTACAATTCTTC
TCTATATATGCTCAGT
Found at i:51208614 original size:21 final size:20
Alignment explanation
Indices: 51208588--51208639 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
51208578 CGACAACTTA
*
51208588 AAGCAGAGGTGGCAGCGAGGG
1 AAGCAGAGGT-GCAGCGAGAG
51208609 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGG-TGCAGCGAGAG
51208630 AAGCAGAGGT
1 AAGCAGAGGT
51208640 TCAAAAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.46, T:0.06
Consensus pattern (20 bp):
AAGCAGAGGTGCAGCGAGAG
Found at i:51209119 original size:42 final size:42
Alignment explanation
Indices: 51209072--51209179 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 42
51209062 AAAGCGCCGT
*
51209072 TAAAGAACATGTTCTTTCGCGGTGCTTA-ATAAAAAACGCCAC
1 TAAAGAACATGTTCTTTCGCGGCGCTTAGA-AAAAAACGCCAC
* *
51209114 TAAAGATCATGTTC-TTCAGCGGCGCTTAGAAAAAAACGCCGC
1 TAAAGAACATGTTCTTTC-GCGGCGCTTAGAAAAAAACGCCAC
* *
51209156 TAAAGACCATGTTCTTTAGCGGCG
1 TAAAGAACATGTTCTTTCGCGGCG
51209180 TTTTTGTTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
41 3 0.05
42 52 0.90
43 3 0.05
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (42 bp):
TAAAGAACATGTTCTTTCGCGGCGCTTAGAAAAAAACGCCAC
Found at i:51209281 original size:123 final size:123
Alignment explanation
Indices: 51209143--51209413 Score: 526
Period size: 123 Copynumber: 2.2 Consensus size: 123
51209133 CGGCGCTTAG
51209143 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTGTTTGTAAACACTGCAAACGTTT
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTGTTTGTAAACACTGCAAACGTTT
51209208 GCGACGATTTCGTTAGCGGCCTTTTTTGCGGTGCTTCCACAAGCGCCGCTAAAGGCCT
66 GCGACGATTTCGTTAGCGGCCTTTTTTGCGGTGCTTCCACAAGCGCCGCTAAAGGCCT
51209266 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTGTTTGTAAACACTGCAAACGTTT
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTGTTTGTAAACACTGCAAACGTTT
*
51209331 GCGACGTTTTCGTTAGCGGCCTTTTTTGCGGTGCTTCCACAAGCGCCGCTAAAGGCCT
66 GCGACGATTTCGTTAGCGGCCTTTTTTGCGGTGCTTCCACAAGCGCCGCTAAAGGCCT
51209389 AAAAAAACGCCGCTAAAGACC-TGTT
1 AAAAAAACGCCGCTAAAGACCATGTT
51209414 TTGGTGTAGT
Statistics
Matches: 147, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
122 4 0.03
123 143 0.97
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.28
Consensus pattern (123 bp):
AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTGTTTGTAAACACTGCAAACGTTT
GCGACGATTTCGTTAGCGGCCTTTTTTGCGGTGCTTCCACAAGCGCCGCTAAAGGCCT
Found at i:51212082 original size:21 final size:21
Alignment explanation
Indices: 51212058--51212098 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
51212048 AGCATATTAC
*
51212058 TTTCATATGGCATACACCATA
1 TTTCATATGGCACACACCATA
51212079 TTTCATATGGCACACACCAT
1 TTTCATATGGCACACACCAT
51212099 GAATGATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.32
Consensus pattern (21 bp):
TTTCATATGGCACACACCATA
Found at i:51218136 original size:15 final size:13
Alignment explanation
Indices: 51218103--51218127 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51218093 CCCCCCAAAC
51218103 ACAGATACAAAAT
1 ACAGATACAAAAT
51218116 ACAGATACAAAA
1 ACAGATACAAAA
51218128 ATAACAGATT
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:0.64, C:0.16, G:0.08, T:0.12
Consensus pattern (13 bp):
ACAGATACAAAAT
Found at i:51229517 original size:26 final size:26
Alignment explanation
Indices: 51229467--51229518 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
51229457 TGTTAATTCA
* *
51229467 TTTTGTCACTTTAACCTTAATCTTTT
1 TTTTATCACTTTAACCTCAATCTTTT
51229493 TTTTATCACTTTAACCCTCAA-CTTTT
1 TTTTATCACTTTAA-CCTCAATCTTTT
51229519 AATAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.21, C:0.23, G:0.02, T:0.54
Consensus pattern (26 bp):
TTTTATCACTTTAACCTCAATCTTTT
Found at i:51232601 original size:38 final size:38
Alignment explanation
Indices: 51232523--51232602 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
51232513 TTAAAAATTA
* *
51232523 TTTTAATAAAATAAAATATTTATTATATTTATTTGTGT
1 TTTTAATAAAATAAAACATTTATTATATTTATTGGTGT
*
51232561 TTTTAATACAATAAAACATTTATTATATTTA-TGGTAGT
1 TTTTAATAAAATAAAACATTTATTATATTTATTGGT-GT
51232599 TTTT
1 TTTT
51232603 TTTTAATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 3 0.08
38 35 0.92
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.54
Consensus pattern (38 bp):
TTTTAATAAAATAAAACATTTATTATATTTATTGGTGT
Found at i:51234728 original size:22 final size:23
Alignment explanation
Indices: 51234686--51234729 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
51234676 TCATGATTGA
* *
51234686 AGATTCTCATTTGATTTCTTTGG
1 AGATTATCATGTGATTTCTTTGG
51234709 AGATTATCATGTG-TTTCTTTG
1 AGATTATCATGTGATTTCTTTG
51234730 TTTCTTGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.52
Consensus pattern (23 bp):
AGATTATCATGTGATTTCTTTGG
Found at i:51246193 original size:24 final size:22
Alignment explanation
Indices: 51246048--51246284 Score: 80
Period size: 24 Copynumber: 10.4 Consensus size: 22
51246038 TAATTTACAA
*
51246048 TAAATAATAT--ATAATAAATT
1 TAAATAATATACATGATAAATT
51246068 TGAAATAATAATACAT-ATAAAATT
1 T-AAATAAT-ATACATGAT-AAATT
* **
51246092 TAAA-AATTTTGATGAT-AATT
1 TAAATAATATACATGATAAATT
* *
51246112 CTAGAATAATCATACGTGATAAATCC
1 -TA-AATAAT-ATACATGATAAAT-T
* * * * *
51246138 AAAAGAACAGTATATAATAAATT
1 TAAATAATA-TACATGATAAATT
51246161 TAAA-AATATTA-ATGATAAATT
1 TAAATAATA-TACATGATAAATT
51246182 TGAAATAGATATACATGATAAATT
1 T-AAATA-ATATACATGATAAATT
* *
51246206 TAAAATAATGTTACA--ATGAATT
1 T-AAATAAT-ATACATGATAAATT
*
51246228 TAAAATAATAATA-TTGATAAATT
1 T-AAATAAT-ATACATGATAAATT
* * *
51246251 ACAAATAATAAAACGTGATAAATCT
1 -TAAATAAT-ATACATGATAAAT-T
*
51246276 AAAATAATA
1 TAAATAATA
51246285 ATATACAATA
Statistics
Matches: 164, Mismatches: 30, Indels: 43
0.69 0.13 0.18
Matches are distributed among these distances:
20 5 0.03
21 22 0.13
22 34 0.21
23 34 0.21
24 64 0.39
25 5 0.03
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.33
Consensus pattern (22 bp):
TAAATAATATACATGATAAATT
Found at i:51246246 original size:69 final size:67
Alignment explanation
Indices: 51246157--51246283 Score: 157
Period size: 69 Copynumber: 1.9 Consensus size: 67
51246147 GTATATAATA
* ** * *
51246157 AATTTAAAAATATTAATGATAAATTTGAAATAGAT-ATACATGATAAATTTAAAATAATGTTACA
1 AATTTAAAAATAATAATGATAAATTACAAATA-ATAAAACATGATAAATCTAAAATAATGTTACA
51246221 ATG
65 ATG
* *
51246224 AATTTAAAATAATAATATTGATAAATTACAAATAATAAAACGTGATAAATCTAAAATAAT
1 AATTT-AAA-AATAATAATGATAAATTACAAATAATAAAACATGATAAATCTAAAATAAT
51246284 AATATACAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
67 5 0.10
68 5 0.10
69 40 0.80
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (67 bp):
AATTTAAAAATAATAATGATAAATTACAAATAATAAAACATGATAAATCTAAAATAATGTTACAA
TG
Found at i:51246295 original size:24 final size:24
Alignment explanation
Indices: 51246185--51246296 Score: 74
Period size: 24 Copynumber: 4.7 Consensus size: 24
51246175 ATAAATTTGA
51246185 AATAGATATACATGATAAATTTAAAAT
1 AATA-ATATACA--ATAAATTTAAAAT
* *
51246212 AAT-GT-TACAATGAATTTAAAAT
1 AATAATATACAATAAATTTAAAAT
**
51246234 AATAATAT-TGATAAA-TTACAAAT
1 AATAATATACAATAAATTTA-AAAT
* *
51246257 AATAA-A-ACGTGATAAATCTAAAAT
1 AATAATATAC--AATAAATTTAAAAT
51246281 AATAATATACAATAAA
1 AATAATATACAATAAA
51246297 ATAACTTAGA
Statistics
Matches: 67, Mismatches: 9, Indels: 21
0.69 0.09 0.22
Matches are distributed among these distances:
22 19 0.28
23 14 0.21
24 25 0.37
25 4 0.06
26 2 0.03
27 3 0.04
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.31
Consensus pattern (24 bp):
AATAATATACAATAAATTTAAAAT
Found at i:51255523 original size:19 final size:21
Alignment explanation
Indices: 51255496--51255550 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 21
51255486 ATTTAACCCT
*
51255496 AAACTTTTATAAAATATT-A-
1 AAACATTTATAAAATATTAAC
51255515 AAACATTTA-AAAAT-TTAAC
1 AAACATTTATAAAATATTAAC
*
51255534 AAATATTTAT-AAATATT
1 AAACATTTATAAAATATT
51255551 TATATTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 2 0.07
18 6 0.20
19 20 0.67
20 2 0.07
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
AAACATTTATAAAATATTAAC
Found at i:51258027 original size:15 final size:16
Alignment explanation
Indices: 51258007--51258042 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
51257997 AATTGGTTCT
51258007 TTTTTTGAG-ATTTTA
1 TTTTTTGAGTATTTTA
*
51258022 TTTTTTGGGTATTTTA
1 TTTTTTGAGTATTTTA
51258038 TTTTT
1 TTTTT
51258043 CCTTTTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.72
Consensus pattern (16 bp):
TTTTTTGAGTATTTTA
Found at i:51258027 original size:16 final size:17
Alignment explanation
Indices: 51258006--51258042 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
51257996 TAATTGGTTC
51258006 TTTTTTTGAG-ATTTTA
1 TTTTTTTGAGTATTTTA
*
51258022 -TTTTTTGGGTATTTTA
1 TTTTTTTGAGTATTTTA
51258038 TTTTT
1 TTTTT
51258043 CCTTTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 6 0.33
17 4 0.22
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.73
Consensus pattern (17 bp):
TTTTTTTGAGTATTTTA
Found at i:51268234 original size:35 final size:35
Alignment explanation
Indices: 51268188--51268259 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
51268178 ACAAACTTGG
**
51268188 GATAAGCTCAAGCAGGTTTTCTAGGGATCACAGAA
1 GATAAGCTCAAGCAGGAGTTCTAGGGATCACAGAA
51268223 GATAAGCTCAAGCAGGAGTTCTAGGGATCACAGAA
1 GATAAGCTCAAGCAGGAGTTCTAGGGATCACAGAA
51268258 GA
1 GA
51268260 AAGATGATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (35 bp):
GATAAGCTCAAGCAGGAGTTCTAGGGATCACAGAA
Found at i:51269615 original size:17 final size:17
Alignment explanation
Indices: 51269572--51269635 Score: 76
Period size: 17 Copynumber: 3.7 Consensus size: 17
51269562 AACTACGAAC
*
51269572 TGTGAGCTCACCAAAAT
1 TGTGAGCTCACCAACAT
*
51269589 GTGCGAGCTCACCAACAT
1 -TGTGAGCTCACCAACAT
51269607 TGTGAGCTCACCAAGCA-
1 TGTGAGCTCACCAA-CAT
*
51269624 TGAGAGCTCACC
1 TGTGAGCTCACC
51269636 TGCAAGCTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
17 24 0.59
18 17 0.41
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (17 bp):
TGTGAGCTCACCAACAT
Found at i:51282255 original size:12 final size:12
Alignment explanation
Indices: 51282238--51282263 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51282228 AAAGAACACA
51282238 TAATTTCAGATT
1 TAATTTCAGATT
51282250 TAATTTCAGATT
1 TAATTTCAGATT
51282262 TA
1 TA
51282264 TTACATAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (12 bp):
TAATTTCAGATT
Found at i:51282831 original size:33 final size:32
Alignment explanation
Indices: 51282771--51282833 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
51282761 AGTTTTGGGT
* *
51282771 CCACACGGCCCAAATAGCCCAGCCCGTGTGGC
1 CCACACAGCCCAAATAGCCCAGACCGTGTGGC
*
51282803 CCACACAGCCCAAAATAGCCTAGACCGTGTG
1 CCACACAGCCC-AAATAGCCCAGACCGTGTG
51282834 TCACACACGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.27, C:0.40, G:0.22, T:0.11
Consensus pattern (32 bp):
CCACACAGCCCAAATAGCCCAGACCGTGTGGC
Found at i:51282841 original size:33 final size:32
Alignment explanation
Indices: 51282772--51282841 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 32
51282762 GTTTTGGGTC
* * *
51282772 CACACGGCCCAAATAGCCCAGCCCGTGTGGCC
1 CACACAGCCCAAATAGCCCAGACCGTGTGGCA
* *
51282804 CACACAGCCCAAAATAGCCTAGACCGTGTGTCA
1 CACACAGCCC-AAATAGCCCAGACCGTGTGGCA
51282837 CACAC
1 CACAC
51282842 GGTCCAGCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 9 0.28
33 23 0.72
ACGTcount: A:0.29, C:0.40, G:0.20, T:0.11
Consensus pattern (32 bp):
CACACAGCCCAAATAGCCCAGACCGTGTGGCA
Found at i:51296291 original size:36 final size:36
Alignment explanation
Indices: 51296239--51296322 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
51296229 ATATATAATT
* * * * *
51296239 ATCACTTTTAAATATTACAACTATATCATTATGCCGA
1 ATCACTTAT-AATATTACAAATACATCAATAGGCCGA
*
51296276 ATCACTTATAATATTACAAATACATCAATAGGCTGA
1 ATCACTTATAATATTACAAATACATCAATAGGCCGA
*
51296312 ATCATTTATAA
1 ATCACTTATAA
51296323 GTTCAATTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 32 0.80
37 8 0.20
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.36
Consensus pattern (36 bp):
ATCACTTATAATATTACAAATACATCAATAGGCCGA
Found at i:51296634 original size:42 final size:42
Alignment explanation
Indices: 51296530--51296634 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
51296520 CGTACAATGA
* * * * *
51296530 CAACGTCCCGGACGTGGTCTTACATGTAATCATATATTGATGC
1 CAACGTCCCAGACGTGGTC-TACACGTAAACATAAATCGATGC
51296573 C-ACTGTCCCAGACAG-GGTCTACACGTAAACA-AAAGTCGATGC
1 CAAC-GTCCCAGAC-GTGGTCTACACGTAAACATAAA-TCGATGC
51296615 CAACGTCCCAGACGTGGTCT
1 CAACGTCCCAGACGTGGTCT
51296635 TACATGAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
41 3 0.06
42 33 0.63
43 15 0.29
44 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (42 bp):
CAACGTCCCAGACGTGGTCTACACGTAAACATAAATCGATGC
Found at i:51304809 original size:19 final size:20
Alignment explanation
Indices: 51304782--51304822 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
51304772 ATGCAAGCAG
51304782 AAATAAAAATAGA-AATAAA
1 AAATAAAAATAGACAATAAA
* *
51304801 AAATGAAAATTGACAATAAA
1 AAATAAAAATAGACAATAAA
51304821 AA
1 AA
51304823 CAAGCAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAGACAATAAA
Found at i:51305668 original size:138 final size:138
Alignment explanation
Indices: 51305418--51305670 Score: 391
Period size: 138 Copynumber: 1.8 Consensus size: 138
51305408 AAAAAGAATT
* * *
51305418 ATTTCCATGTCTTTTATATTTTGACTTAAATCAATTAATATAATTGTTTATATTAATAAATTCGG
1 ATTTCCATGTCTTTTATATTTTGACTAAAATCAATTAATATAACTATTTATATTAATAAATTCGG
* * * * *
51305483 TGATATATATACAATTAATATTTTGTATGAATCAAATTTATATATTAATTATATTCTTTCTAAAA
66 TAAAATATATACAATTAATATTTTGCATGAATCAAATTCATAAATTAATTATATTCTTTCTAAAA
51305548 TAATATTA
131 TAATATTA
* *
51305556 ATTTCCATGTCTTTTATATTTTGA-TCAAAATTAATTAATATAACTATTTTTATTAATAAATTCG
1 ATTTCCATGTCTTTTATATTTTGACT-AAAATCAATTAATATAACTATTTATATTAATAAATTCG
*
51305620 GTAAAATATATAGAATTAATATTTTGCATGAATCAAATTCATAAATTAATT
65 GTAAAATATATACAATTAATATTTTGCATGAATCAAATTCATAAATTAATT
51305671 TTATCTATGT
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
137 1 0.01
138 102 0.99
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.47
Consensus pattern (138 bp):
ATTTCCATGTCTTTTATATTTTGACTAAAATCAATTAATATAACTATTTATATTAATAAATTCGG
TAAAATATATACAATTAATATTTTGCATGAATCAAATTCATAAATTAATTATATTCTTTCTAAAA
TAATATTA
Found at i:51321955 original size:15 final size:15
Alignment explanation
Indices: 51321935--51321978 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
51321925 CCATAATAGT
51321935 CACATATCATATAAA
1 CACATATCATATAAA
*
51321950 CACATATCATAATACA
1 CACATATCAT-ATAAA
51321966 CACATATTCATAT
1 CACATA-TCATAT
51321979 TTTAAGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 10 0.38
16 12 0.46
17 4 0.15
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.30
Consensus pattern (15 bp):
CACATATCATATAAA
Found at i:51321970 original size:16 final size:16
Alignment explanation
Indices: 51321935--51321977 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
51321925 CCATAATAGT
51321935 CACATATCAT-ATAAA
1 CACATATCATAATAAA
*
51321950 CACATATCATAATACA
1 CACATATCATAATAAA
51321966 CACATATTCATA
1 CACATA-TCATA
51321978 TTTTAAGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 10 0.40
16 10 0.40
17 5 0.20
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (16 bp):
CACATATCATAATAAA
Found at i:51323663 original size:15 final size:15
Alignment explanation
Indices: 51323643--51323671 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
51323633 GAATCGAGTT
51323643 GAGTCAAAAAATTTC
1 GAGTCAAAAAATTTC
51323658 GAGTCAAAAAATTT
1 GAGTCAAAAAATTT
51323672 AAATTTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (15 bp):
GAGTCAAAAAATTTC
Found at i:51331755 original size:16 final size:17
Alignment explanation
Indices: 51331723--51331765 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
51331713 CAGGTATGGT
*
51331723 GAGCTCACTATTTTTGTA
1 GAGCTCAC-AGTTTTGTA
51331741 -AGCTCACAGTTTTGTA
1 GAGCTCACAGTTTTGTA
51331757 GAGCTCACA
1 GAGCTCACA
51331766 CATTTGGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (17 bp):
GAGCTCACAGTTTTGTA
Found at i:51336872 original size:29 final size:29
Alignment explanation
Indices: 51336830--51336887 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
51336820 AACAGATAAT
*
51336830 AATATGTGGCATCCTAA-TCAACTTTCCAA
1 AATATGTGACATCC-AAGTCAACTTTCCAA
*
51336859 AATATGTGACATCCAAGTTAACTTTCCAA
1 AATATGTGACATCCAAGTCAACTTTCCAA
51336888 TTGGGTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.31
Consensus pattern (29 bp):
AATATGTGACATCCAAGTCAACTTTCCAA
Found at i:51337347 original size:16 final size:16
Alignment explanation
Indices: 51337326--51337373 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
51337316 TAATTGGGTT
51337326 AGTTTGAGTAATTTTA
1 AGTTTGAGTAATTTTA
* *
51337342 AGTTTGAATAAATTTTG
1 AGTTTGAGT-AATTTTA
*
51337359 AGTTCGTAGTAATTT
1 AGTTTG-AGTAATTT
51337374 AAATTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 8 0.31
17 16 0.62
18 2 0.08
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (16 bp):
AGTTTGAGTAATTTTA
Found at i:51340106 original size:2 final size:2
Alignment explanation
Indices: 51340099--51340125 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
51340089 TACAGTTAGT
51340099 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
51340126 TGTTTCGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51356413 original size:19 final size:19
Alignment explanation
Indices: 51356389--51356429 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
51356379 TATTTTAAAG
51356389 TTATTTAAGTAGATAAATC
1 TTATTTAAGTAGATAAATC
*
51356408 TTATTTAGGTAGATAAATC
1 TTATTTAAGTAGATAAATC
51356427 TTA
1 TTA
51356430 GAATAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (19 bp):
TTATTTAAGTAGATAAATC
Found at i:51356512 original size:41 final size:41
Alignment explanation
Indices: 51356467--51356548 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
51356457 ATATTTTATT
* **
51356467 TTATCTTTTTGTAATTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTAATTTATTAGAATAAGAAAATTATTTTCC
*
51356508 TTATCTTTTAGTAGTTTATTAGAATAAGAAAATTATTTTCC
1 TTATCTTTTAGTAATTTATTAGAATAAGAAAATTATTTTCC
51356549 CAAATAGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.50
Consensus pattern (41 bp):
TTATCTTTTAGTAATTTATTAGAATAAGAAAATTATTTTCC
Found at i:51362357 original size:178 final size:174
Alignment explanation
Indices: 51362055--51362415 Score: 510
Period size: 178 Copynumber: 2.0 Consensus size: 174
51362045 GTATTCAGAT
51362055 ATTAGACGAAGCTCAATCAAAAGCAATATGAATAAAAAGACCACTTTATAAGCCAAAACATCTGA
1 ATTAGACGAAGCTCAATCAAAAGCAATATGAATAAAAAGACCACTTTATAAGCCAAAACA-CTGA
* *
51362120 CATTTAATACAAAGGAAATGAAAGAAGGCATATCAGCAGCATTAAAAAGGAAAGAGATAAGAAGC
65 CATTTAATACAAAAGAAATGAAAGAAGGCATACCAGCAGCATTAAAAAGGAAAGAGATAAGAAGC
* *
51362185 GAACACAACTG-CCTAATATCAAGGGAAACAAATAAAAAGGAGAA
130 AAACACAACTGACCTAATACCAAGGGAAACAAATAAAAAGGAGAA
* * *
51362229 ATTAGATGAAGCTCAGTCAAAAGCAATATGAATAAAATAATGAAGACCATTTTATAAGCCAAAAC
1 ATTAGACGAAGCTCAATCAAAAGCAATATGAAT---A-AA--AAGACCACTTTATAAGCCAAAAC
*
51362294 A-TGACATTTAATACAAAAGAAATGAAAGAAGGCATACCAGTAGCATTAAAAAGGAAAGAGATAA
60 ACTGACATTTAATACAAAAGAAATGAAAGAAGGCATACCAGCAGCATTAAAAAGGAAAGAGATAA
*
51362358 GAGGCAAACACAACTGTCAACTACCTAATACCAAGGGAAACAAATAAAAAGGAGAA
125 GAAGCAAACACAACTG------ACCTAATACCAAGGGAAACAAATAAAAAGGAGAA
51362414 AT
1 AT
51362416 CTAGTACACA
Statistics
Matches: 165, Mismatches: 9, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
174 31 0.19
177 1 0.01
178 76 0.46
180 23 0.14
185 34 0.21
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (174 bp):
ATTAGACGAAGCTCAATCAAAAGCAATATGAATAAAAAGACCACTTTATAAGCCAAAACACTGAC
ATTTAATACAAAAGAAATGAAAGAAGGCATACCAGCAGCATTAAAAAGGAAAGAGATAAGAAGCA
AACACAACTGACCTAATACCAAGGGAAACAAATAAAAAGGAGAA
Found at i:51368499 original size:17 final size:17
Alignment explanation
Indices: 51368477--51368509 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
51368467 TTTGAAAAAG
51368477 GATAAATTCTTAATTTT
1 GATAAATTCTTAATTTT
*
51368494 GATAAATTTTTAATTT
1 GATAAATTCTTAATTT
51368510 AGTCCTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (17 bp):
GATAAATTCTTAATTTT
Found at i:51374336 original size:15 final size:17
Alignment explanation
Indices: 51374308--51374343 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
51374298 TCTTTCTGTT
51374308 TTTTCTACTCTTT-CAA
1 TTTTCTACTCTTTCCAA
51374324 TTTTCTA-TCTTTCCAA
1 TTTTCTACTCTTTCCAA
51374340 TTTT
1 TTTT
51374344 GTGTCCATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTCTACTCTTTCCAA
Found at i:51376323 original size:14 final size:13
Alignment explanation
Indices: 51376289--51376329 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
51376279 ATATGTATTG
51376289 AAATTATAATAAA
1 AAATTATAATAAA
*
51376302 AAATTATAAT-TA
1 AAATTATAATAAA
*
51376314 AAATTGT-ATAAA
1 AAATTATAATAAA
51376326 AAAT
1 AAAT
51376330 ACTTTATACA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
11 2 0.08
12 12 0.50
13 10 0.42
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (13 bp):
AAATTATAATAAA
Found at i:51376871 original size:46 final size:46
Alignment explanation
Indices: 51376804--51376901 Score: 189
Period size: 46 Copynumber: 2.2 Consensus size: 46
51376794 TTGTACCTAT
51376804 TTGTATGGGTTGATATAATATCTATCACAAATGAATATTGATAGTG
1 TTGTATGGGTTGATATAATATCTATCACAAATGAATATTGATAGTG
51376850 TTGTATGGGTTGATATAATATCTATCACAAATGAATATTGATAGTG
1 TTGTATGGGTTGATATAATATCTATCACAAATGAATATTGATAGTG
51376896 -TGTATG
1 TTGTATG
51376902 AACCTTTCTT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 6 0.12
46 46 0.88
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (46 bp):
TTGTATGGGTTGATATAATATCTATCACAAATGAATATTGATAGTG
Found at i:51377527 original size:98 final size:97
Alignment explanation
Indices: 51377440--51377963 Score: 743
Period size: 97 Copynumber: 5.4 Consensus size: 97
51377430 ATTTGAGGGA
* * *
51377440 TTTAAGGAAAAAAAATCAAATAAAATAAGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTT
1 TTTAAGG--AAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAATTTT
*
51377505 AAAAAAATTAGATTAGGGTTTAGTGTTTAGAGTT
64 AAAAAAATTAGATTAGGGTTTAGTGTTTAGGGTT
* * * *
51377539 TTTAAGAAAAAAAATCAAATAAATTAGGGTTTAGGATTATTTGAGTAAATTAATTATAAATTTTT
1 TTTAAG-GAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAA--TTT
* * *
51377604 TTAAAAAATTAGATTAAGGTTTAGTGTTTGGGGTT
63 TAAAAAAATTAGATTAGGGTTTAGTGTTTAGGGTT
* * *
51377639 TTTAAGAAAAAAAAATTAAATAAATTAAGGTTTGGGGTTACTTGAGTAAATTAATTATAAA--TT
1 TTTAAG--GAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAATTTT
*
51377702 AAAAAAA-TAGATTAGGGTTTGGTGTTTAGGGTT
64 AAAAAAATTAGATTAGGGTTTAGTGTTTAGGGTT
* *
51377735 TTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTGTAAATTTTTA
1 TTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAATTTTAA
*
51377800 AAAAATTAGATGAGGGTTTAGTGTTTAGGGTT
66 AAAAATTAGATTAGGGTTTAGTGTTTAGGGTT
* * *
51377832 TTTAAGGAAAAAATCAAATACATTTGGGTTTGGGTTTACTTGAGTAAATTAATTATAAATTTTAA
1 TTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAATTTTAA
* *
51377897 AAAAATTAGATTAGAGTTTAGTGTTTAAGG-T
66 AAAAATTAGATTAGGGTTTAGTGTTTAGGGTT
51377928 TTTAAGG-AAAAATCAAATAAATTAGGGTTTGGGGTT
1 TTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTT
51377964 TAGAGTTACT
Statistics
Matches: 382, Mismatches: 36, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
94 49 0.13
95 26 0.07
96 45 0.12
97 119 0.31
98 48 0.13
99 6 0.02
100 40 0.10
101 49 0.13
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.38
Consensus pattern (97 bp):
TTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAATTTTAA
AAAAATTAGATTAGGGTTTAGTGTTTAGGGTT
Found at i:51378225 original size:126 final size:125
Alignment explanation
Indices: 51377995--51378413 Score: 671
Period size: 126 Copynumber: 3.3 Consensus size: 125
51377985 TTTGTTAATT
*
51377995 TAAAA-AAGCTCCCACGTGGACGCTCTTTTGCTATAGTAG-TTCTTGAAAAAATAAATTTGAGAA
1 TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTC-TGAAAAAAT-AATTTGAGAA
* * *
51378058 GACGTTTCTGAGCAAATAGTGCCAAAAACGCTTTAAGCAGGATGTATTGTCAGCAAAAGTAC
64 GACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCAATGTCAGCAAAAGTAC
* * *
51378120 TAAAAGAAGCTCCCACGCGAACGCTCTTTTGCTACAATAGTTTCTGAAAAAATAATTCTGAGAAG
1 TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATT-TGAGAAG
*
51378185 ACGTTTCTGAGCAAATAGTGTCAAAAATGCTTTAAGCAGGATGCAATGTCAGCAAAAGTAC
65 ACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCAATGTCAGCAAAAGTAC
* *
51378246 TGAAAGAAGCTCCCACGTGGACGCTCTTTTGATACAGTAGTTTCTGAAAAAATAATTTTGAGAAG
1 TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAA-TTTGAGAAG
* *
51378311 ATGTTTCTGAGTAAATAGTGTCAAAAACGCTTTAAGCAGGATGCAATGTCAGCAAAAGTAC
65 ACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCAATGTCAGCAAAAGTAC
*
51378372 TGAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTT
1 TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTT
51378414 CCTATTTGGC
Statistics
Matches: 273, Mismatches: 17, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
125 9 0.03
126 259 0.95
127 5 0.02
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (125 bp):
TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTGAGAAGA
CGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCAATGTCAGCAAAAGTAC
Found at i:51381692 original size:21 final size:21
Alignment explanation
Indices: 51381663--51381708 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
51381653 CTTTGTCCAG
*
51381663 CTTCTGGCGAGGG-TTGTGGTT
1 CTTCTGGCG-GGGATTCTGGTT
51381684 ACTTC-GGCGGGGATTCTGGTT
1 -CTTCTGGCGGGGATTCTGGTT
51381705 CTTC
1 CTTC
51381709 CGATAGGGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 7 0.32
21 11 0.50
22 4 0.18
ACGTcount: A:0.07, C:0.20, G:0.37, T:0.37
Consensus pattern (21 bp):
CTTCTGGCGGGGATTCTGGTT
Found at i:51385116 original size:102 final size:103
Alignment explanation
Indices: 51384981--51385362 Score: 416
Period size: 104 Copynumber: 3.7 Consensus size: 103
51384971 CACTAAGAAA
* * ** * * * *
51384981 TTTTTTATTGATTTTAGTGTTTCCACATGAAGAGGCGACACCCAAAAAGT-AAAAAAAAATTATC
1 TTTTTTACTGATTTTGGTGCCTCTACATGAAGAGGCGGCACCGAAAAAGTCAAAAAAAAATTATT
* * * *
51385045 AGTGTCACCTCATTTAGAGTTAGCACCAGCGAAATAAT
66 AGTGCCACCACATTTAGAGTTGGCACCAGAGAAATAAT
* ** *
51385083 TTTTTTACTGATTTTGGTGCCTCTACATAAAGAGGCGGCACCGAAAATTTCAAAAAAAAAATTGT
1 TTTTTTACTGATTTTGGTGCCTCTACATGAAGAGGCGGCACCGAAAAAGTC-AAAAAAAAATTAT
* * * * *
51385148 TGGTGCCGCCACATTTAGAGTTGGCATCAGGGAAA-ATTT
65 TAGTGCCACCACATTTAGAGTTGGCACCAGAGAAATA-AT
** * *
51385187 TTTTTTACTGATTTTGGTGCCTCTACATGAAGAGGCGGCATTG-AAAATTCCAAAAAAAATTATT
1 TTTTTTACTGATTTTGGTGCCTCTACATGAAGAGGCGGCACCGAAAAAGTCAAAAAAAAATTATT
* *
51385251 AGTGCCACCACATTTGGAGTTGGCACTAGAGAAATAAAT
66 AGTGCCACCACATTTAGAGTTGGCACCAGAGAAAT-AAT
* * *
51385290 TATTTTTACAGATTTTGGTGCCTCTACATGAAGAGGCGGCACCGAAAAAGT--AACAAAAA-TAC
1 T-TTTTTACTGATTTTGGTGCCTCTACATGAAGAGGCGGCACCGAAAAAGTCAAAAAAAAATTAT
51385352 TAGTGCCACCA
65 TAGTGCCACCA
51385363 TTAGGGGTGA
Statistics
Matches: 234, Mismatches: 39, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
102 93 0.40
103 16 0.07
104 120 0.51
105 5 0.02
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (103 bp):
TTTTTTACTGATTTTGGTGCCTCTACATGAAGAGGCGGCACCGAAAAAGTCAAAAAAAAATTATT
AGTGCCACCACATTTAGAGTTGGCACCAGAGAAATAAT
Found at i:51387022 original size:34 final size:34
Alignment explanation
Indices: 51386968--51387054 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 34
51386958 AGCATTTAAT
* * * * *
51386968 TATGCTTTTAACAGAACAATA-CGATATCAATTAG
1 TATGCTTATAACAGATCAATATAGATA-CAAATAA
* *
51387002 TATGCTTATAACAGCTCAATATAGTTACAAATAA
1 TATGCTTATAACAGATCAATATAGATACAAATAA
51387036 TATGCTTATAACAGATCAA
1 TATGCTTATAACAGATCAA
51387055 CTCAATACCA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
34 41 0.93
35 3 0.07
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (34 bp):
TATGCTTATAACAGATCAATATAGATACAAATAA
Found at i:51387980 original size:11 final size:11
Alignment explanation
Indices: 51387960--51387993 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
51387950 AATATGGTGT
*
51387960 AAAGAGAATAG
1 AAAGAGAATAA
*
51387971 AAAGAAAATAA
1 AAAGAGAATAA
51387982 AAAGAGAATAA
1 AAAGAGAATAA
51387993 A
1 A
51387994 TAAAAGGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (11 bp):
AAAGAGAATAA
Found at i:51390236 original size:45 final size:46
Alignment explanation
Indices: 51390138--51390250 Score: 187
Period size: 46 Copynumber: 2.5 Consensus size: 46
51390128 TTTGAGTACT
*
51390138 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
51390184 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
*
51390229 TCTGATC-AGGGAC-AAGTGATAA
1 TCTGATCAAGTGACAAAGTGATAA
51390251 ATGATCATAT
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
43 9 0.14
44 5 0.08
45 19 0.29
46 32 0.49
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
Found at i:51392744 original size:24 final size:24
Alignment explanation
Indices: 51392717--51392763 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
51392707 ATTTATTTTC
51392717 TTTTTTGTTT-CTCTATTTGTTTGA
1 TTTTTT-TTTACTCTATTTGTTTGA
*
51392741 TTTTTTTTTACTCTTTTTGTTTG
1 TTTTTTTTTACTCTATTTGTTTG
51392764 GAGTATATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.06, C:0.09, G:0.11, T:0.74
Consensus pattern (24 bp):
TTTTTTTTTACTCTATTTGTTTGA
Found at i:51395170 original size:32 final size:33
Alignment explanation
Indices: 51395129--51395216 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
51395119 AATTTTTTTG
* *
51395129 GAAAATATTTT-CAGGAAATC-TGCCAAACAGCA
1 GAAAATATTTTACAGCAAATCAT-CCAAACACCA
*
51395161 GAAAATATTTTACA-CAGATTCATCCAAACACCA
1 GAAAATATTTTACAGCA-AATCATCCAAACACCA
* *
51395194 GAAAATATTTTCCAGTAAATCAT
1 GAAAATATTTTACAGCAAATCAT
51395217 TTTACAGAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
32 12 0.26
33 32 0.70
34 2 0.04
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.26
Consensus pattern (33 bp):
GAAAATATTTTACAGCAAATCATCCAAACACCA
Found at i:51395249 original size:35 final size:35
Alignment explanation
Indices: 51395195--51395262 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
51395185 CAAACACCAG
*
51395195 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
51395230 AAAACATTTTCCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTT-CCAGTAAATCATTTTACAGAAAA
51395263 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 26 0.87
36 4 0.13
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:51395498 original size:16 final size:16
Alignment explanation
Indices: 51395477--51395524 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
51395467 CAATTCAAAT
51395477 TTAAAAATAATCTAAA
1 TTAAAAATAATCTAAA
51395493 TTAAAAATAATCTAAA
1 TTAAAAATAATCTAAA
* *
51395509 TTTAAAATAACCTAAA
1 TTAAAAATAATCTAAA
51395525 GCTAAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.31
Consensus pattern (16 bp):
TTAAAAATAATCTAAA
Found at i:51395530 original size:16 final size:16
Alignment explanation
Indices: 51395496--51395534 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
51395486 ATCTAAATTA
* **
51395496 AAAATAATCTAAATTT
1 AAAATAACCTAAAGCT
51395512 AAAATAACCTAAAGCT
1 AAAATAACCTAAAGCT
51395528 AAAATAA
1 AAAATAA
51395535 TCCATCATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAATAACCTAAAGCT
Found at i:51395532 original size:32 final size:33
Alignment explanation
Indices: 51395473--51395536 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
51395463 GCAACAATTC
* *
51395473 AAATTTAAAAATAATCTAAATTAAAAATAATCT
1 AAATTTAAAAATAACCTAAACTAAAAATAATCT
51395506 AAATTT-AAAATAACCTAAAGCT-AAAATAATC
1 AAATTTAAAAATAACCTAAA-CTAAAAATAATC
51395537 CATCATCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 21 0.75
33 7 0.25
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (33 bp):
AAATTTAAAAATAACCTAAACTAAAAATAATCT
Found at i:51397258 original size:29 final size:29
Alignment explanation
Indices: 51397224--51397279 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
51397214 TTGATTTTTT
* *
51397224 TTTAATAGTATAGGGATTAAATTGATCCA
1 TTTAATAGTAAAGGGACTAAATTGATCCA
*
51397253 TTTAATAGTAAAGGGACTAATTTGATC
1 TTTAATAGTAAAGGGACTAAATTGATC
51397280 TAGTCCTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (29 bp):
TTTAATAGTAAAGGGACTAAATTGATCCA
Found at i:51400359 original size:24 final size:22
Alignment explanation
Indices: 51400296--51400361 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 22
51400286 TCTACTTTTG
* *
51400296 TTTAAAAAAAACCATTTTTTCTT
1 TTTAAAAAAAACCCTTTTTGC-T
*
51400319 TCTTAAAAATAACCCCTTTTTAGCT
1 T-TTAAAAA-AAACCCTTTTT-GCT
51400344 TTTAAAAAAGAACCCTTT
1 TTTAAAAAA-AACCCTTT
51400362 GGTAATATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
23 2 0.06
24 21 0.60
25 11 0.31
26 1 0.03
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (22 bp):
TTTAAAAAAAACCCTTTTTGCT
Found at i:51423956 original size:7 final size:7
Alignment explanation
Indices: 51423946--51423986 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
51423936 AACTACAAAC
51423946 TAATATA
1 TAATATA
51423953 TAATATA
1 TAATATA
*
51423960 TAATAAA
1 TAATATA
*
51423967 TAATAAA
1 TAATATA
51423974 TAATA-A
1 TAATATA
51423980 -AATATA
1 TAATATA
51423986 T
1 T
51423987 TATTAAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 4 0.13
6 2 0.06
7 25 0.81
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
TAATATA
Found at i:51432348 original size:21 final size:21
Alignment explanation
Indices: 51432322--51432362 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
51432312 GACGAGTAAC
51432322 AGATCAGACAAATCATATCAT
1 AGATCAGACAAATCATATCAT
* * *
51432343 AGATCATACATATCGTATCA
1 AGATCAGACAAATCATATCA
51432363 CACCATATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.27
Consensus pattern (21 bp):
AGATCAGACAAATCATATCAT
Found at i:51433828 original size:25 final size:25
Alignment explanation
Indices: 51433793--51433860 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
51433783 TACCAAATCT
*
51433793 AGCTCTTATGAGCTTACCGATACTC
1 AGCTCATATGAGCTTACCGATACTC
* * * *
51433818 AGTTCATATGAGCTTATCGTTATTC
1 AGCTCATATGAGCTTACCGATACTC
* *
51433843 AGCTCAGAGGAGCTTACC
1 AGCTCATATGAGCTTACC
51433861 ATTTATCGCT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (25 bp):
AGCTCATATGAGCTTACCGATACTC
Found at i:51439627 original size:40 final size:40
Alignment explanation
Indices: 51439568--51439697 Score: 153
Period size: 40 Copynumber: 3.4 Consensus size: 40
51439558 GAGATTTGTG
51439568 CTAGTCGGATAAACAGACGAGATCGAATGTGTGCCCAGCA
1 CTAGTCGGATAAACAGACGAGATCGAATGTGTGCCCAGCA
* * *
51439608 CTAGTTGGATAAACTGACGAGATCGAATGTGTGCCC-GATA
1 CTAGTCGGATAAACAGACGAGATCGAATGTGTGCCCAG-CA
* * * *
51439648 GTAGTCGAATAAACCGAC-A-AT-G-ATTTGTGCCCAGCA
1 CTAGTCGGATAAACAGACGAGATCGAATGTGTGCCCAGCA
51439684 CTAGTCGGATAAAC
1 CTAGTCGGATAAAC
51439698 CGACAATTAC
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
36 22 0.29
37 2 0.03
38 2 0.03
39 2 0.03
40 49 0.64
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (40 bp):
CTAGTCGGATAAACAGACGAGATCGAATGTGTGCCCAGCA
Found at i:51441535 original size:13 final size:14
Alignment explanation
Indices: 51441509--51441537 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
51441499 TTTTTTATCA
51441509 AATAAAATTTAATT
1 AATAAAATTTAATT
51441523 AATAAAA-TTAATT
1 AATAAAATTTAATT
51441536 AA
1 AA
51441538 AATAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAAATTTAATT
Done.