Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 53 of 91
Found at i:8717667 original size:29 final size:29
Alignment explanation
Indices: 8717634--8717689 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
8717624 GTTTCTTAAG
*
8717634 AAATAATACTATAAAGACTAAATTCCTTT
1 AAATAATACTAGAAAGACTAAATTCCTTT
* *
8717663 AAATAATGCTAGAAGGACTAAATTCCT
1 AAATAATACTAGAAAGACTAAATTCCT
8717690 AAAAATTAAA
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:0.46, C:0.14, G:0.09, T:0.30
Consensus pattern (29 bp):
AAATAATACTAGAAAGACTAAATTCCTTT
Found at i:8719033 original size:23 final size:27
Alignment explanation
Indices: 8718984--8719036 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
8718974 TTGAAAAAGA
*
8718984 TTTTTTTGTTATTTATTGAAATGATTT
1 TTTTTTTGTTATTTATTGAAATCATTT
8719011 TTTTTTTGTT-TTTA-T-AAA-CATTT
1 TTTTTTTGTTATTTATTGAAATCATTT
8719034 TTT
1 TTT
8719037 GAAAACTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 7 0.28
24 3 0.12
25 1 0.04
26 4 0.16
27 10 0.40
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.70
Consensus pattern (27 bp):
TTTTTTTGTTATTTATTGAAATCATTT
Found at i:8719283 original size:12 final size:12
Alignment explanation
Indices: 8719268--8719295 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
8719258 AAATGAGCTA
8719268 AAAAAATAAAAT
1 AAAAAATAAAAT
8719280 AAAAAATAAAAT
1 AAAAAATAAAAT
8719292 AAAA
1 AAAA
8719296 TGAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:8719290 original size:18 final size:19
Alignment explanation
Indices: 8719243--8719303 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 19
8719233 AACCATAATA
8719243 AAAAAACTAAAAATAAAATG
1 AAAAAA-TAAAAATAAAATG
***
8719263 AGCTAA-AAAAATAAAAT-
1 AAAAAATAAAAATAAAATG
8719280 AAAAAAT-AAAATAAAATG
1 AAAAAATAAAAATAAAATG
8719298 AAAAAA
1 AAAAAA
8719304 AAGAAACCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
17 13 0.39
18 17 0.52
20 3 0.09
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (19 bp):
AAAAAATAAAAATAAAATG
Found at i:8719294 original size:25 final size:25
Alignment explanation
Indices: 8719239--8719295 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
8719229 ATAAAACCAT
* *
8719239 AATAAAAAAACTAAAAATAAAATGA
1 AATAAAAAAACTAAAAAAAAAATAA
**
8719264 GCTAAAAAAA-TAAAATAAAAAATAA
1 AATAAAAAAACTAAAA-AAAAAATAA
8719289 AATAAAA
1 AATAAAA
8719296 TGAAAAAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.16
Consensus pattern (25 bp):
AATAAAAAAACTAAAAAAAAAATAA
Found at i:8720113 original size:3 final size:3
Alignment explanation
Indices: 8720105--8720207 Score: 133
Period size: 3 Copynumber: 35.3 Consensus size: 3
8720095 AAATAAAGAG
*
8720105 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
8720153 AA- AAGT AAT GAT AAT -AT GAT AAT AAT AAC AAT AAT AAT -AT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8720196 AAT -AT AAT AAT A
1 AAT AAT AAT AAT A
8720208 TGATATAATA
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
2 8 0.09
3 78 0.89
4 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8720173 original size:8 final size:8
Alignment explanation
Indices: 8720174--8720208 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
8720164 TAATATGATA
*
8720174 ATAATAAC
1 ATAATAAT
8720182 AATAATAAT
1 A-TAATAAT
8720191 ATAATAAT
1 ATAATAAT
8720199 ATAATAAT
1 ATAATAAT
8720207 AT
1 AT
8720209 GATATAATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (8 bp):
ATAATAAT
Found at i:8720217 original size:18 final size:20
Alignment explanation
Indices: 8720105--8720241 Score: 123
Period size: 18 Copynumber: 7.2 Consensus size: 20
8720095 AAATAAAGAG
8720105 AATAATAATA--ATAATAAT
1 AATAATAATATGATAATAAT
8720123 AATAATAATA--ATAATAAT
1 AATAATAATATGATAATAAT
8720141 AATAATAATA-G-TAA-AAGT
1 AATAATAATATGATAATAA-T
*
8720159 AATGATAATATGATAATAAT
1 AATAATAATATGATAATAAT
*
8720179 AACAATAATAAT-ATAATAAT
1 AATAATAAT-ATGATAATAAT
8720199 -ATAATAATATGAT-ATAAT
1 AATAATAATATGATAATAAT
* * **
8720217 ACTATACAATATCCTAATAAT
1 AATA-ATAATATGATAATAAT
8720238 AATA
1 AATA
8720242 TGATAATAGT
Statistics
Matches: 100, Mismatches: 9, Indels: 17
0.79 0.07 0.13
Matches are distributed among these distances:
17 2 0.02
18 48 0.48
19 12 0.12
20 26 0.26
21 12 0.12
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (20 bp):
AATAATAATATGATAATAAT
Found at i:8720269 original size:53 final size:50
Alignment explanation
Indices: 8720182--8720279 Score: 117
Period size: 53 Copynumber: 1.9 Consensus size: 50
8720172 TAATAATAAC
* **
8720182 AATAATAATATAATAATATAATAATATGATATAATACTATACAATATCCT
1 AATAATAATATAATAATATAATAATAAGATATAATAAAATACAATATCCT
*
8720232 AATAATAATATGATAATAGTACTATAATAAAGA-ATAATAAAATACAAT
1 AATAATAATATAATAATA-TA--ATAAT-AAGATATAATAAAATACAAT
8720280 CCAATTGACC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
50 17 0.43
51 2 0.05
53 18 0.45
54 3 0.08
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (50 bp):
AATAATAATATAATAATATAATAATAAGATATAATAAAATACAATATCCT
Found at i:8720703 original size:56 final size:54
Alignment explanation
Indices: 8720619--8720746 Score: 134
Period size: 56 Copynumber: 2.3 Consensus size: 54
8720609 TGAGATGATG
* * *** * *
8720619 CCACGGGTCAAAAAATGATCTAACCCAAGTTGAGATTGGATGA-CTAGGACAAAA
1 CCACGAGTCAAAAGATGATCTAACCCAAGCCAAGATCGAATGACCTA-GACAAAA
8720673 CCACGAGTCATGAAAGATGATCTGAA-CCAAGCCAAGATCGAATGACCTAGACAAAA
1 CCACGAGTCA--AAAGATGATCT-AACCCAAGCCAAGATCGAATGACCTAGACAAAA
*
8720729 CCATGAGTCAAAAGATGA
1 CCACGAGTCAAAAGATGA
8720747 AGTGACCATA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
54 17 0.27
56 40 0.65
57 5 0.08
ACGTcount: A:0.42, C:0.20, G:0.21, T:0.16
Consensus pattern (54 bp):
CCACGAGTCAAAAGATGATCTAACCCAAGCCAAGATCGAATGACCTAGACAAAA
Found at i:8721044 original size:120 final size:120
Alignment explanation
Indices: 8720670--8721195 Score: 436
Period size: 120 Copynumber: 4.4 Consensus size: 120
8720660 GACTAGGACA
* ** * * *
8720670 AAACCACGAGTCATGAA-AGATGATCTGAACCAAGCCAAGATCGAATGACCT-AGACAAAACCAT
1 AAACCACGAGTCAT-AAGAAATGATCTGAATTAAGCCAAGATCGAGTGA-TTGGGACAAAACCAT
* * * * * * ** * * *
8720733 GAGTCAAAAGATGAAGTGACCA-TAACTAAGTCGAGGTAAAAAATAAATGATCGGAACA
64 GAGTCAAAA-ATAAAGTGACTAGGATC-GAGTTGAGGTTGAAAATAAATGACCCGAACG
* * **
8720791 AAACCACGAGTCATAAGAAATGATCT-AGATTAAGCCATGATCAAGTGATCAGGACAAAACCATG
1 AAACCACGAGTCATAAGAAATGATCTGA-ATTAAGCCAAGATCGAGTGATTGGGACAAAACCATG
* * * *
8720855 AGTTAAAAAATAAAGTGACCAGGATCGAGTCGAGGTTGAAAATAAATGACCATG-ACG
65 AG-TCAAAAATAAAGTGACTAGGATCGAGTTGAGGTTGAAAATAAATGACC-CGAACG
** ** * * *
8720912 AAACCATAAGTCATAAGAAATGATCTGAATCGAGCGAAGATCGGGTGATTGGGACAAAACCACGA
1 AAACCACGAGTCATAAGAAATGATCTGAATTAAGCCAAGATCGAGTGATTGGGACAAAACCATGA
* * * *
8720977 GTCAAAAATAAAGCGACTAAGATTGAGTTGAGGTTGAAAATAAATGACCCGAATG
66 GTCAAAAATAAAGTGACTAGGATCGAGTTGAGGTTGAAAATAAATGACCCGAACG
* * * * ** *
8721032 AAACCATGAGTCATAAAAAATGATCTGGATTAAGCCAAGATCGAGTAATTGGGATGAAACTATGA
1 AAACCACGAGTCATAAGAAATGATCTGAATTAAGCCAAGATCGAGTGATTGGGACAAAACCATGA
* * * * ** * *
8721097 GTCAAAATTAAAGTGATTAGGACCGAGTTAAGGTCAAAAATAAATGA-TCGAAATG
66 GTCAAAAATAAAGTGACTAGGATCGAGTTGAGGTTGAAAATAAATGACCCG-AACG
* * *
8721152 AAACCACGAGTCATATGAAATGATCT-AGACTAGGCCAAGATCGA
1 AAACCACGAGTCATAAGAAATGATCTGA-ATTAAGCCAAGATCGA
8721196 CGAGTGATAA
Statistics
Matches: 329, Mismatches: 66, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
119 3 0.01
120 179 0.54
121 138 0.42
122 9 0.03
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (120 bp):
AAACCACGAGTCATAAGAAATGATCTGAATTAAGCCAAGATCGAGTGATTGGGACAAAACCATGA
GTCAAAAATAAAGTGACTAGGATCGAGTTGAGGTTGAAAATAAATGACCCGAACG
Found at i:8722023 original size:12 final size:12
Alignment explanation
Indices: 8721950--8722024 Score: 51
Period size: 13 Copynumber: 5.8 Consensus size: 12
8721940 TGTTTTTCTT
8721950 TTTTTTTTCTTAC
1 TTTTTTTT-TTAC
*
8721963 TTTTTTTCTTGTAA
1 TTTTTTT-TT-TAC
*
8721977 TTTTTTTTGTTTC
1 TTTTTTTT-TTAC
**
8721990 TTTTTTGTTTGCCC
1 TTTTTT-TTT-TAC
*
8722004 TATTTTTTTTAC
1 TTTTTTTTTTAC
8722016 TTTTTTTTT
1 TTTTTTTTT
8722025 GCACACTTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
12 9 0.19
13 20 0.42
14 19 0.40
ACGTcount: A:0.07, C:0.11, G:0.05, T:0.77
Consensus pattern (12 bp):
TTTTTTTTTTAC
Found at i:8725910 original size:9 final size:10
Alignment explanation
Indices: 8725885--8725912 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
8725875 AAAATTATTA
8725885 TATTTTTTGT
1 TATTTTTTGT
8725895 TATTTTTTGT
1 TATTTTTTGT
8725905 TATTTTTT
1 TATTTTTT
8725913 TTGAAAAAAA
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:0.11, C:0.00, G:0.07, T:0.82
Consensus pattern (10 bp):
TATTTTTTGT
Found at i:8726343 original size:19 final size:20
Alignment explanation
Indices: 8726321--8726364 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
8726311 AATGTGGTAA
*
8726321 AAAAATAAAAT-CAAAAAAT
1 AAAAATAAAATGCAAAAAAG
*
8726340 AAAAATAAAATGGAAAAAAG
1 AAAAATAAAATGCAAAAAAG
8726360 AAAAA
1 AAAAA
8726365 GGAAACCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (20 bp):
AAAAATAAAATGCAAAAAAG
Found at i:8727170 original size:3 final size:3
Alignment explanation
Indices: 8727162--8727346 Score: 100
Period size: 3 Copynumber: 63.3 Consensus size: 3
8727152 AAAGAAAGAA
* * * * *
8727162 AAT AAT AAT AAT AAC AAT AAC AAT AAAT AAAT AAA AAT AAA AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT AAT AAT
* * * * * * *
8727209 AAT CAT AAT AAT AGT CAT AGT AAT GAT AAT -AT GAT AAT AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
8727256 AAT AAT -AT AAT AAT -AT AAT AAT -AT GAT -AT AAT ACT ATAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* * * *
8727298 -AT ACT AAT AAT AAT -AT GAT AAT AAT -AT TAT AAT AAAG AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
8727341 AA- AAT A
1 AAT AAT A
8727347 TGGTCCAATT
Statistics
Matches: 137, Mismatches: 33, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
2 18 0.13
3 109 0.80
4 10 0.07
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:8727200 original size:20 final size:20
Alignment explanation
Indices: 8727171--8727208 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8727161 AAATAATAAT
* *
8727171 AATAACAATAACAATAAATA
1 AATAAAAATAAAAATAAATA
8727191 AATAAAAATAAAAATAAA
1 AATAAAAATAAAAATAAA
8727209 AATCATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (20 bp):
AATAAAAATAAAAATAAATA
Found at i:8727244 original size:8 final size:8
Alignment explanation
Indices: 8727245--8727331 Score: 68
Period size: 8 Copynumber: 10.1 Consensus size: 8
8727235 TAATATGATA
*
8727245 ATAATAAC
1 ATAATAAT
8727253 AATAATAAT
1 A-TAATAAT
8727262 ATAATAAT
1 ATAATAAT
8727270 ATAATAAT
1 ATAATAAT
8727278 ATGATATAAT
1 AT-A-ATAAT
*
8727288 ACTATACAAT
1 A-TA-ATAAT
*
8727298 ATACTAAT
1 ATAATAAT
8727306 AATAAT-AT
1 -ATAATAAT
8727314 GATAATAAT
1 -ATAATAAT
*
8727323 ATTATAAT
1 ATAATAAT
8727331 A
1 A
8727332 AAGAATAATA
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
8 36 0.55
9 16 0.24
10 13 0.20
11 1 0.02
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (8 bp):
ATAATAAT
Found at i:8727250 original size:11 final size:10
Alignment explanation
Indices: 8727234--8727332 Score: 78
Period size: 11 Copynumber: 9.4 Consensus size: 10
8727224 CATAGTAATG
8727234 ATAATATGATA
1 ATAATAT-ATA
*
8727245 ATAATA-ACA
1 ATAATATATA
8727254 ATAATAATATA
1 ATAAT-ATATA
8727265 ATAATATAATA
1 ATAATAT-ATA
8727276 AT-ATGATATA
1 ATAAT-ATATA
* *
8727286 ATACTATACA
1 ATAATATATA
8727296 AT-ATACTAATA
1 ATAATA-T-ATA
8727307 ATAATATGATA
1 ATAATAT-ATA
8727318 ATAATATTATA
1 ATAATA-TATA
8727329 ATAA
1 ATAA
8727333 AGAATAATAA
Statistics
Matches: 72, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
9 9 0.12
10 17 0.24
11 42 0.58
12 4 0.06
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (10 bp):
ATAATATATA
Found at i:8728111 original size:32 final size:32
Alignment explanation
Indices: 8728048--8728111 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
8728038 TAATAGTATT
* * *
8728048 TTATCTATGAAGTTCGGTAAGTGTCTATTTTA
1 TTATCTATGAAGTTCAGTAAGCGTCGATTTTA
*
8728080 TTATCTATGAAGTTTAGTAAGCGT-GACTTTTA
1 TTATCTATGAAGTTCAGTAAGCGTCGA-TTTTA
8728112 AAATTAATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.27, C:0.09, G:0.19, T:0.45
Consensus pattern (32 bp):
TTATCTATGAAGTTCAGTAAGCGTCGATTTTA
Found at i:8742498 original size:136 final size:136
Alignment explanation
Indices: 8742250--8742522 Score: 438
Period size: 136 Copynumber: 2.0 Consensus size: 136
8742240 AATGATCAAG
** * * *
8742250 CTACCAAGCTATACATTTGAATTGATGGATGATCAAGGTTAAATCCTCTTCTCCCACCAGGTTAC
1 CTACCAAGCTATACATTCCAATTGATGGACGATCAAGGTTAAATCCTCCTCTCCCACCAGGCTAC
* *
8742315 TTTGGCAATGTAATCTTTCTTGCTACACCAATTGCTCTAGTTTGTGATCTCCAATCCGAACCATT
66 TTTGGCAATGTAATCTTTCTTGCTACACCAATTGCTCTAGTTGGTGATCTCCAATACGAACCATT
8742380 TACCAA
131 TACCAA
*
8742386 CTACCAAGCTATACATTCCAATTGATGGACGATCAAGGTTAAATCCTCCTCTCCCACTAGGCTAC
1 CTACCAAGCTATACATTCCAATTGATGGACGATCAAGGTTAAATCCTCCTCTCCCACCAGGCTAC
* * * *
8742451 TTTGGCAATGTAATCTTTCTTGCTACACCAATTGTTTTAGTTGGTGATCTCTAATATGAACCATT
66 TTTGGCAATGTAATCTTTCTTGCTACACCAATTGCTCTAGTTGGTGATCTCCAATACGAACCATT
8742516 TACCAA
131 TACCAA
8742522 C
1 C
8742523 ACTGTTAAGA
Statistics
Matches: 125, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
136 125 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (136 bp):
CTACCAAGCTATACATTCCAATTGATGGACGATCAAGGTTAAATCCTCCTCTCCCACCAGGCTAC
TTTGGCAATGTAATCTTTCTTGCTACACCAATTGCTCTAGTTGGTGATCTCCAATACGAACCATT
TACCAA
Found at i:8742931 original size:17 final size:17
Alignment explanation
Indices: 8742909--8742942 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8742899 AGTGTGACTG
8742909 TTAAAATTAAGTCAAAT
1 TTAAAATTAAGTCAAAT
*
8742926 TTAAAATTAATTCAAAT
1 TTAAAATTAAGTCAAAT
8742943 CATTTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (17 bp):
TTAAAATTAAGTCAAAT
Found at i:8742976 original size:10 final size:11
Alignment explanation
Indices: 8742947--8742979 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
8742937 TCAAATCATT
8742947 TTTACTTTTTA
1 TTTACTTTTTA
*
8742958 ATTACTTTTTA
1 TTTACTTTTTA
8742969 TTTA-TTTTTA
1 TTTACTTTTTA
8742979 T
1 T
8742980 ATTTCATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTACTTTTTA
Found at i:8753114 original size:23 final size:21
Alignment explanation
Indices: 8753072--8753118 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
8753062 ATATTGATGC
**
8753072 TTTATTTGATTTTATTTTCATA
1 TTTATTTGATTTTAAGTTCA-A
8753094 TTTAGTTTGATTTTAAGTTCAA
1 TTTA-TTTGATTTTAAGTTCAA
8753116 TTT
1 TTT
8753119 GTGATCGAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.23, C:0.04, G:0.09, T:0.64
Consensus pattern (21 bp):
TTTATTTGATTTTAAGTTCAA
Found at i:8761015 original size:28 final size:28
Alignment explanation
Indices: 8760975--8761032 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
8760965 CTCTATTTAC
*
8760975 ATACATTCGTTGTTGTTATTTTCAAAAA
1 ATACATTCATTGTTGTTATTTTCAAAAA
8761003 ATACATTCATTGTTGTTATTTTCAAAAA
1 ATACATTCATTGTTGTTATTTTCAAAAA
8761031 AT
1 AT
8761033 GGCACAAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (28 bp):
ATACATTCATTGTTGTTATTTTCAAAAA
Found at i:8765185 original size:21 final size:21
Alignment explanation
Indices: 8765137--8765185 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
8765127 GACCCCTTAT
8765137 TATTCAAGTTGGTGATATTGA
1 TATTCAAGTTGGTGATATTGA
* *
8765158 TACTCAAGTTGGTGATCTTGA
1 TATTCAAGTTGGTGATATTGA
*
8765179 TGTTCAA
1 TATTCAA
8765186 AATAAGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (21 bp):
TATTCAAGTTGGTGATATTGA
Found at i:8768755 original size:161 final size:160
Alignment explanation
Indices: 8768482--8769918 Score: 1406
Period size: 161 Copynumber: 8.9 Consensus size: 160
8768472 AAGTAAGTTT
* ** * * * * *
8768482 ATGATATTAAACTTATCCAAATGATTGAACTTGGTTTCCATTGTTGATTTGTGTGAAAAA--AAC
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAGTTGATATGTATGAAAAAGTTAC
* * * * * *
8768545 TGTAATTTATGTCTGTTTGAGA-TTTTT-TGCATCCTTAAAATGTAAAATGCAAATTTACAATTA
66 --T-ATTTATGTCTGTTTAAGACTTTTTATG--TCGTTAAAAGGAAAAATGCAAATTTGCTATTA
* * **
8768608 TTGTTCTATTTTAACAATTTTGATAATTTCAATAC
126 TTGTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* ** * * * **
8768643 ATGATATTAAACTTGTCTGAATAATTGATTTTGGTTTTCACAATTGATATGTATGCAAAAGTTGT
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAGTTGATATGTATGAAAAAGTTAC
* * * *
8768708 TATTTATGTCTGTTTAAGACTTTTTATGTTGTTAAAAGGCCAAAATGCAAATTTACTATTGTTGT
66 TATTTATGTCTGTTTAAGACTTTTTATGTCGTTAAAAGG-AAAAATGCAAATTTGCTATTATTGT
* * * *
8768773 TATGTTTTAATAGTTTGGATAGCTTTAATAC
130 TCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * *
8768804 ATGATATTAAACTTGTCTGAATAATTGAACTTAGTTTACATAGTTGATATGTATGAAAAAATTAC
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAGTTGATATGTATGAAAAAGTTAC
* * ** * * * *
8768869 CACTTACATTTGTTTAAGACTTTTTATGCCGTTAAAAGGCATAAATGCAAAATTGCTATTATTGT
66 TATTTATGTCTGTTTAAGACTTTTTATGTCGTTAAAAGG-AAAAATGCAAATTTGCTATTATTGT
*
8768934 GCTATTTTAACAGTTTGGATAGCTTCAATTAC
130 TCTATTTTAACAGTTTGGATAGCTTCAA-TAC
* * * * **
8768966 ATGCTATTAAACTTGTCTGAATGATTGAACTTGATTTCCATAGTTAATATGTATGAAAAAACTAC
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAGTTGATATGTATGAAAAAGTTAC
* ** ** * * * * *
8769031 CACGTACATTTGTTTAAGACTTTTTATGTAGTTAAAAGGCATAAATGTAAAATTGCTATTATTGT
66 TATTTATGTCTGTTTAAGACTTTTTATGTCGTTAAAAGG-AAAAATGCAAATTTGCTATTATTGT
* *
8769096 GCTATTTTAACAATTTGGATAGCTTCAATAC
130 TCTATTTTAACAGTTTGGATAGCTTCAATAC
* ** * * *
8769127 ATGATATTAAACTTATCCAAATGAGTGAACTTGGTTTCCAT-GATTGATATGTGTGAAAAAGTTA
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAG-TTGATATGTATGAAAAAGTTA
* * * * * *
8769191 TTGTTTATGTCTGGTTAAGACTTTTTATGCCGTTAAAAGGCAAAAATGCAAATTTGCTATTGTTA
65 CTATTTATGTCTGTTTAAGACTTTTTATGTCGTTAAAAGG-AAAAATGCAAATTTGCTATTATTG
* * * *
8769256 TTCTATTTTAATAGTTTTGATAGTTTCAATAA
129 TTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * *
8769288 ATGATATTAAACTTATATGAGTGATTAAACTTAGTTTTCATAGTTGATATGTATGAAAAAGTTA-
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAGTTGATATGTATGAAAAAGTTAC
* * * * * **
8769352 TCGTTTATGTCTATTTAAGA-TTTTT-TATCGTTAAAAGGTAAAAATGTAAATTTGTTGCTATTG
66 T-ATTTATGTCTGTTTAAGACTTTTTATGTCGTTAAAAGG-AAAAATGCAAATTTGCTATTATTG
*
8769415 TACTATTTTAACAGTTTGGATAGCTTCAATAC
129 TTCTATTTTAACAGTTTGGATAGCTTCAATAC
*
8769447 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAGTTGATATATATGAAAAAGTTAC
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAGTTGATATGTATGAAAAAGTTAC
* ** * * * * * *
8769512 TGTTTACCTTTG-TTAAGATTTTTTATGACGTTAAAAGGCAAAAATGTAAATTTGATGTTATTGT
66 TATTTATGTCTGTTTAAGACTTTTTATGTCGTTAAAAGG-AAAAATGCAAATTTGCTATTATTGT
* *
8769576 TCTTTTTTAACAGTTTGGATGGCTTCAATAC
130 TCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * * *
8769607 ATGATATTAAACTTCTCTGAATGATTAAACTTAGTTTTCACAGTTGAAATGTGTGAAAAAGTTA-
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAGTTGATATGTATGAAAAAGTTAC
* * *
8769671 TAATTTATGTCTGTTTAAGAC-TTTT-TGTACGGTTAAAAGGTAAAAAAGCAAAATTACTATTAT
66 T-ATTTATGTCTGTTTAAGACTTTTTATGT-C-GTTAAAAGG-AAAAATGCAAATTTGCTATTAT
* *
8769734 TGTGCTGTTTTAACAGTTTGGATAGCTTCAATAC
127 TGTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* ** * * * *
8769768 ATGATAATAAACTTGTCCAAATGATTGAACTTGATTTTCATGGTTGATATGTGTGAAAAAAGTTG
1 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAGTTGATATGTATG-AAAAAGTTA
* * * * ** *
8769833 CTATTTAT-CCATATTTAAGATTTTTTATGTCGTTAAAAGGTAAAATTATAAATTTGCTGTTATT
65 CTATTTATGTC-TGTTTAAGACTTTTTATGTCGTTAAAAGG-AAAAATGCAAATTTGCTATTATT
*
8769897 GTTCTATTTTAACAATTTGGAT
128 GTTCTATTTTAACAGTTTGGAT
8769919 GATATTAAAT
Statistics
Matches: 1063, Mismatches: 192, Indels: 41
0.82 0.15 0.03
Matches are distributed among these distances:
158 6 0.01
159 129 0.12
160 164 0.15
161 536 0.50
162 219 0.21
163 6 0.01
164 3 0.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (160 bp):
ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAGTTGATATGTATGAAAAAGTTAC
TATTTATGTCTGTTTAAGACTTTTTATGTCGTTAAAAGGAAAAATGCAAATTTGCTATTATTGTT
CTATTTTAACAGTTTGGATAGCTTCAATAC
Found at i:8769115 original size:323 final size:319
Alignment explanation
Indices: 8768482--8769918 Score: 1345
Period size: 323 Copynumber: 4.5 Consensus size: 319
8768472 AAGTAAGTTT
* * * * *
8768482 ATGATATTAAACTTATCCAAATGATTGAACTTGGTTTCCATTGTTGATTTGTGTGAAAAAA--AC
1 ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTTCATAGTTGATATGTATGAAAAAATTAC
** * * * * * * * *
8768545 TGTAATTTATGTCTGTTTGAGA-TTTTT-TGCATCCTTAAAATG-TAAAATGCAAATTTACAATT
66 --T-ATTTACATTTGTTTAAGACTTTTTATGC--CGTTAAAAGGCAAAAATGCAAAATTGCTATT
* * ** * * * *
8768607 ATTGTTCTATTTTAACAATTTTGATAATTTCAATACATGATATTAAACTTGTCTGAATAATTGAT
126 ATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTATCTGAATGATTAAA
* * * * * * * ** * *
8768672 TTTGGTTTTCACAATTGATATGTATGCAAAAGTTGTTATTTATGTCTGTTTAAGACTTTTTATGT
191 CTTAGTTTTCATAGTTAATATGTATGAAAAAG-T-TAACGTATATTTGTTTAAGACTTTTT-TGT
* * * * ** * * *
8768737 TGTTAAAAGGCCAAAATGCAAATTTACTATTGTTGTTATGTTTTAATAGTTTGGATAGCTTTAAT
253 AGTTAAAAGGCAAAAATGCAAAATTACTATTATTGTGCTATTTTAACAGTTTGGATAGCTTCAAT
8768802 AC
318 AC
** * * *
8768804 ATGATATTAAACTTGTCTGAATAATTGAACTTAGTTTACATAGTTGATATGTATGAAAAAATTAC
1 ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTTCATAGTTGATATGTATGAAAAAATTAC
* * *
8768869 CACTTACATTTGTTTAAGACTTTTTATGCCGTTAAAAGGCATAAATGCAAAATTGCTATTATTGT
66 TATTTACATTTGTTTAAGACTTTTTATGCCGTTAAAAGGCAAAAATGCAAAATTGCTATTATTGT
* * * *
8768934 GCTATTTTAACAGTTTGGATAGCTTCAATTACATGCTATTAAACTTGTCTGAATGATTGAACTT-
131 TCTATTTTAACAGTTTGGATAGCTTCAA-TACATGATATTAAACTTATCTGAATGATTAAACTTA
* ** *
8768998 GATTTCCATAGTTAATATGTATGAAAAAACTACCACGTACATTTGTTTAAGACTTTTTATGTAGT
195 G-TTTTCATAGTTAATATGTATGAAAAAGTTA--ACGTATATTTGTTTAAGACTTTTT-TGTAGT
* * * *
8769063 TAAAAGGCATAAATGTAAAATTGCTATTATTGTGCTATTTTAACAATTTGGATAGCTTCAATAC
256 TAAAAGGCAAAAATGCAAAATTACTATTATTGTGCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * *
8769127 ATGATATTAAACTTATCCAAATGAGTGAACTTGGTTTCCAT-GATTGATATGTGTGAAAAAGTTA
1 ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTTCATAG-TTGATATGTATGAAAAAATTA
* * ** * * * * *
8769191 TTGTTTATGTCTGGTTAAGACTTTTTATGCCGTTAAAAGGCAAAAATGCAAATTTGCTATTGTTA
65 CTATTTACATTTGTTTAAGACTTTTTATGCCGTTAAAAGGCAAAAATGCAAAATTGCTATTATTG
* * * * * *
8769256 TTCTATTTTAATAGTTTTGATAGTTTCAATAAATGATATTAAACTTATATGAGTGATTAAACTTA
130 TTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTATCTGAATGATTAAACTTA
* * * * * *
8769321 GTTTTCATAGTTGATATGTATGAAAAAGTTATCGTTTATGTCTATTTAAGA-TTTTTTATCGTTA
195 GTTTTCATAGTTAATATGTATGAAAAAGTTAACGTATAT-T-TGTTTAAGACTTTTTTGTAGTTA
* * * ** ** *
8769385 AAAGGTAAAAATGTAAATTTGTTGCTATTGTACTATTTTAACAGTTTGGATAGCTTCAATAC
258 AAAGGCAAAAATGCAAAATTACTATTATTGTGCTATTTTAACAGTTTGGATAGCTTCAATAC
** * *
8769447 ATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCATAGTTGATATATATGAAAAAGTTAC
1 ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTTCATAGTTGATATGTATGAAAAAATTAC
* * * * * * * *
8769512 TGTTTACCTTTG-TTAAGATTTTTTATGACGTTAAAAGGCAAAAATGTAAATTTGATGTTATTGT
66 TATTTACATTTGTTTAAGACTTTTTATGCCGTTAAAAGGCAAAAATGCAAAATTGCTATTATTGT
* * *
8769576 TCTTTTTTAACAGTTTGGATGGCTTCAATACATGATATTAAACTTCTCTGAATGATTAAACTTAG
131 TCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTATCTGAATGATTAAACTTAG
* * * *
8769641 TTTTCACAGTTGAA-ATGTGTGAAAAAGTTATA-ATTTATGTCTGTTTAAGAC-TTTTTGTACGG
196 TTTTCATAGTT-AATATGTATGAAAAAGTTA-ACGTATAT-T-TGTTTAAGACTTTTTTGTA--G
* * *
8769703 TTAAAAGGTAAAAAAGCAAAATTACTATTATTGTGCTGTTTTAACAGTTTGGATAGCTTCAATAC
255 TTAAAAGGCAAAAATGCAAAATTACTATTATTGTGCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * *
8769768 ATGATAATAAACTTGTCCAAATGATTGAACTTGATTTTCATGGTTGATATGTGTGAAAAAAGTTG
1 ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTTCATAGTTGATATGTATGAAAAAA-TTA
* * * * * ** * *
8769833 CTATTTATCCA--TATTTAAGATTTTTTATGTCGTTAAAAGGTAAAATTATAAATTTGCTGTTAT
65 CTATTTA--CATTTGTTTAAGACTTTTTATGCCGTTAAAAGGCAAAAATGCAAAATTGCTATTAT
*
8769896 TGTTCTATTTTAACAATTTGGAT
128 TGTTCTATTTTAACAGTTTGGAT
8769919 GATATTAAAT
Statistics
Matches: 923, Mismatches: 169, Indels: 45
0.81 0.15 0.04
Matches are distributed among these distances:
319 148 0.16
320 130 0.14
321 139 0.15
322 174 0.19
323 329 0.36
324 3 0.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (319 bp):
ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTTCATAGTTGATATGTATGAAAAAATTAC
TATTTACATTTGTTTAAGACTTTTTATGCCGTTAAAAGGCAAAAATGCAAAATTGCTATTATTGT
TCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTATCTGAATGATTAAACTTAG
TTTTCATAGTTAATATGTATGAAAAAGTTAACGTATATTTGTTTAAGACTTTTTTGTAGTTAAAA
GGCAAAAATGCAAAATTACTATTATTGTGCTATTTTAACAGTTTGGATAGCTTCAATAC
Found at i:8773138 original size:5 final size:5
Alignment explanation
Indices: 8773128--8773171 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
8773118 TGTTACTTGG
8773128 TTTTA TTTTA TTTTA TTATTTA TTTTA -TTTA -TTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA -T-TTTA TTTTA TTTTA TTTTA TTTTA TTTT
8773172 TCCTTATTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
4 8 0.22
5 22 0.61
6 2 0.06
7 4 0.11
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:8773151 original size:17 final size:18
Alignment explanation
Indices: 8773128--8773171 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
8773118 TGTTACTTGG
8773128 TTTTATTTTATTT-TATTA
1 TTTTATTTTATTTAT-TTA
8773146 -TTTATTTTATTTATTTA
1 TTTTATTTTATTTATTTA
8773163 TTTTATTTT
1 TTTTATTTT
8773172 TCCTTATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTATTTTATTTATTTA
Found at i:8773170 original size:13 final size:13
Alignment explanation
Indices: 8773129--8773170 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
8773119 GTTACTTGGT
8773129 TTTATTTTATTTTA
1 TTTA-TTTATTTTA
8773143 -TTATTTATTTTA
1 TTTATTTATTTTA
8773155 TTTATTTATTTTA
1 TTTATTTATTTTA
8773168 TTT
1 TTT
8773171 TTCCTTATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.33
13 18 0.67
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:8775290 original size:20 final size:20
Alignment explanation
Indices: 8775265--8775304 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8775255 TTAAGTTTGT
8775265 AGAGTTAGTAAGAGGTGGAG
1 AGAGTTAGTAAGAGGTGGAG
* **
8775285 AGAGTTGGTGGGAGGTGGAG
1 AGAGTTAGTAAGAGGTGGAG
8775305 GTAAAGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.53, T:0.20
Consensus pattern (20 bp):
AGAGTTAGTAAGAGGTGGAG
Found at i:8775827 original size:120 final size:119
Alignment explanation
Indices: 8775611--8775861 Score: 274
Period size: 120 Copynumber: 2.1 Consensus size: 119
8775601 TGCCTTGAAT
* * ***
8775611 GCCTTAAATAATTCCCTACCTTTTTTGGGATTATTCAAGGCATTTTTAGCCAAAAACGCTTTGAA
1 GCCTTGAATAATCCCCTACCTTTTTTGGGATTATTCAAGGCATTTTTAGCCAAAAACGCCGAGAA
* *
8775676 TAATTCCCTCATAAAAATTAAATGGTGTTATTCAAAT-CGTTTTTAGCTAAAAAA
66 TAATTCCCTCATAAAAATTAAATGGTATTATTC-AATGCGTTTTTAGCCAAAAAA
* * * ** *
8775730 GCCTTGAATAATCCCCTGCCATTTTTTTGGATTATTCAAGGCGTTTTTAGTGAGAAACGCCGAGA
1 GCCTTGAATAATCCCCTACC-TTTTTTGGGATTATTCAAGGCATTTTTAGCCAAAAACGCCGAGA
*** * *
8775795 ATAATTTTTTACA-AAAAATTGAATAGG-ATTATTCAATGCGTTTTTAGCCAAAAAT
65 ATAATTCCCT-CATAAAAATTAAAT-GGTATTATTCAATGCGTTTTTAGCCAAAAAA
*
8775850 CCCTTGAATAAT
1 GCCTTGAATAAT
8775862 TCATTAACAA
Statistics
Matches: 109, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
119 20 0.18
120 85 0.78
121 4 0.04
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (119 bp):
GCCTTGAATAATCCCCTACCTTTTTTGGGATTATTCAAGGCATTTTTAGCCAAAAACGCCGAGAA
TAATTCCCTCATAAAAATTAAATGGTATTATTCAATGCGTTTTTAGCCAAAAAA
Found at i:8775859 original size:62 final size:65
Alignment explanation
Indices: 8775758--8775885 Score: 147
Period size: 62 Copynumber: 2.0 Consensus size: 65
8775748 CCATTTTTTT
** * * *
8775758 GGATTATTCAAGGCGTTTTTAGTGAGAAACGCCGAGAATAATT-TTTTACAAAAA-ATT-GAATA
1 GGATTATTCAAGGCGTTTTTAGCCAAAAACGCCGAGAATAATTCATTAACAAAAACATTGGAATA
* **
8775820 GGATTATTCAATGCGTTTTTAGCCAAAAATC-CCTTGAATAATTCATTAACAAAAACATTGGAAT
1 GGATTATTCAAGGCGTTTTTAGCCAAAAA-CGCCGAGAATAATTCATTAACAAAAACATTGGAAT
8775884 A
65 A
8775885 G
1 G
8775886 CTTAGTCAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
62 35 0.65
63 10 0.19
64 3 0.06
65 6 0.11
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (65 bp):
GGATTATTCAAGGCGTTTTTAGCCAAAAACGCCGAGAATAATTCATTAACAAAAACATTGGAATA
Found at i:8776396 original size:210 final size:209
Alignment explanation
Indices: 8775998--8776664 Score: 670
Period size: 210 Copynumber: 3.2 Consensus size: 209
8775988 CAAAAAAATA
* * * * *
8775998 CCTTAAATAATCCTATTTAATTTTTTGTAATGG-ATTATTCAAGAATTTTTAGCCAAAAACAACT
1 CCTTCAATAATCCTATTCAATTTTTTGTAA-GGAATTATTCAAGAGTTTCTAGCCAAAAACACCT
* * * * * * * **
8776062 TCAATAATCCGTGGAAAACCT-TCAAAATACTCGAAGGA-AGGATTGAACCTATAACCTTATCAT
65 TCAATAATCCCTTGAAAAACTCTCAAAATGCTAGAAAGAGA-GATCGAACCTATAACCTTATGGT
* * *
8776125 TAATAG-CAGTACACTTTAACCGATTGAGTTACTTCAAC-ATTTTTGTTAATGGATTATTCAAGG
129 TAATAGCCA-TATACTCTAACCGATTGAGTTGC-TCAACTATTTTTGTTAATGGATTATTCAAGG
8776188 CATTTTTTGCCAAAAACG
192 CATTTTTTGCCAAAAACG
* *
8776206 CCTTCAATAATCCTATTCAATTTTTTGTAAGGAATTATTCAATGTGTTTCTAGCCAAAAATACCT
1 CCTTCAATAATCCTATTCAATTTTTTGTAAGGAATTATTCAA-GAGTTTCTAGCCAAAAACACCT
* * *
8776271 TCAATAATCCCTTGAAAAACTCTCAAAATGCTAGAATGAGAGATCGAACCTATGATCTTATGGTT
65 TCAATAATCCCTTGAAAAACTCTCAAAATGCTAGAAAGAGAGATCGAACCTATAACCTTATGGTT
* * * * * * * *
8776336 AATAGCCATATACTCCAACCAACTAAGTTGCTCCACTATTTTTATTAATGAATTATTCAAGGTAT
130 AATAGCCATATACTCTAACCGATTGAGTTGCTCAACTATTTTTGTTAATGGATTATTCAAGGCAT
* * *
8776401 TTTTTACTAAGAACG
195 TTTTTGCCAAAAACG
* * * * * *
8776416 CGTTGAATAATCCTATTCAATTTTTTATAAGGGATTATTCAAGGCGTTTCTCA-TCAAAAACACC
1 CCTTCAATAATCCTATTCAATTTTTTGTAAGGAATTATTCAA-GAGTTTCT-AGCCAAAAACACC
* * * *
8776480 TTCAATGATCCCTT-AGAAAACCCTCAAAACGCTA-AAGAGAGAGATCGAACCTACAACCTTATG
64 TTCAATAATCCCTTGA-AAAACTCTCAAAATGCTAGAA-AGAGAGATCGAACCTATAACCTTATG
* * ** * * *
8776543 GTTAATAGCCATATGCTCTAACTGATTGAGTTGCTTTAGTGTTTTTGTTAAGGGATTATTCAA-G
127 GTTAATAGCCATATACTCTAACCGATTGAGTTGCTCAACTATTTTTGTTAATGGATTATTCAAGG
*
8776607 CATTTTTGGCCAAAAACG
192 CATTTTTTGCCAAAAACG
* ** *
8776625 TCTTCAATAATCCCCTATAAAATTTTTTGT-ATGAATTATT
1 CCTTCAATAAT--CCTATTCAATTTTTTGTAAGGAATTATT
8776665 GAAGGCTTTT
Statistics
Matches: 375, Mismatches: 73, Indels: 20
0.80 0.16 0.04
Matches are distributed among these distances:
207 2 0.01
208 37 0.10
209 64 0.17
210 254 0.68
211 18 0.05
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (209 bp):
CCTTCAATAATCCTATTCAATTTTTTGTAAGGAATTATTCAAGAGTTTCTAGCCAAAAACACCTT
CAATAATCCCTTGAAAAACTCTCAAAATGCTAGAAAGAGAGATCGAACCTATAACCTTATGGTTA
ATAGCCATATACTCTAACCGATTGAGTTGCTCAACTATTTTTGTTAATGGATTATTCAAGGCATT
TTTTGCCAAAAACG
Found at i:8776778 original size:64 final size:60
Alignment explanation
Indices: 8776609--8776778 Score: 155
Period size: 64 Copynumber: 2.7 Consensus size: 60
8776599 TATTCAAGCA
* ** * *
8776609 TTTTTGGCCAAAAACGTCTTCAATAATCCCCTATAAAATTTTTTGTATGAATTATTGAAGGCT
1 TTTTTGGCCAAAAACGCCTTCAATAAT--CCTATTCAATTTTTT-TATGAATTATTGAAGACG
* * * * *
8776672 TTTTTGGTCGAAAACACCTTCAATAATTCT-TCTCCAAATTTTTT-TGAATGGGCTATTGAAGAC
1 TTTTTGGCCAAAAACGCCTTCAATAATCCTAT-T-CAATTTTTTTATGAAT----TATTGAAGAC
8776735 G
60 G
8776736 TTTTTGGCCAAAAACGCCTTCAATAATCCTATTCAATTTTTTT
1 TTTTTGGCCAAAAACGCCTTCAATAATCCTATTCAATTTTTTT
8776779 GTAAGCTAAT
Statistics
Matches: 85, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
60 6 0.07
61 3 0.04
62 7 0.08
63 32 0.38
64 36 0.42
65 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (60 bp):
TTTTTGGCCAAAAACGCCTTCAATAATCCTATTCAATTTTTTTATGAATTATTGAAGACG
Found at i:8778311 original size:37 final size:36
Alignment explanation
Indices: 8778011--8778344 Score: 141
Period size: 35 Copynumber: 9.4 Consensus size: 36
8778001 TATTCTTTTC
* * * **
8778011 TTTTTTTTACTTATGGCTCAATCCCAATCATTTTTA
1 TTTTTTTGACTTGTGGCTCAATCCCAGTCATCCTTA
* * * * *
8778047 -TTTTCTAACTTGTGGTTCAGTCTCAGTCATCCTT-
1 TTTTTTTGACTTGTGGCTCAATCCCAGTCATCCTTA
* * *** ** *
8778081 GTTTATTGACTTG-CATTTTATCCCAGTCATCCATA
1 TTTTTTTGACTTGTGGCTCAATCCCAGTCATCCTTA
** ** * * * * *
8778116 TTTTTTT-ACTTACGATTTAATTCCAATCATCTTTT
1 TTTTTTTGACTTGTGGCTCAATCCCAGTCATCCTTA
* * * *
8778151 TTTTTTTAACTTGTAGCTCAATCTC-GATCATCTTTA
1 TTTTTTTGACTTGTGGCTCAATCCCAG-TCATCCTTA
* ** *
8778187 -TTTTTTAACTTGTGATTCAATCCC-GATCAT-TTTCA
1 TTTTTTTGACTTGTGGCTCAATCCCAG-TCATCCTT-A
** * **
8778222 -TTTTTTGACTTAAGGTTCAATCTTAGTCATCCTTA
1 TTTTTTTGACTTGTGGCTCAATCCCAGTCATCCTTA
* * *
8778257 TTTTTCTGACTTATGGCTTAATCCCAGTCATCCTTA
1 TTTTTTTGACTTGTGGCTCAATCCCAGTCATCCTTA
* *
8778293 TTTTTTTTGACTTGTGGCTCAGTCCCATTCAT-CTCTA
1 -TTTTTTTGACTTGTGGCTCAATCCCAGTCATCCT-TA
8778330 -TTTTTTGACTTGTGG
1 TTTTTTTGACTTGTGG
8778345 TTTAGTCTTA
Statistics
Matches: 226, Mismatches: 61, Indels: 23
0.73 0.20 0.07
Matches are distributed among these distances:
34 21 0.09
35 126 0.56
36 51 0.23
37 28 0.12
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.49
Consensus pattern (36 bp):
TTTTTTTGACTTGTGGCTCAATCCCAGTCATCCTTA
Found at i:8778341 original size:35 final size:35
Alignment explanation
Indices: 8778255--8778377 Score: 113
Period size: 35 Copynumber: 3.4 Consensus size: 35
8778245 TAGTCATCCT
* * *
8778255 TATTTTTCTGACTTATGGCTTAATCCCAGTCATC-C
1 TATTTTT-TGACTTGTGGCTTAGTCCCAATCATCTC
* *
8778290 TTATTTTTTTTGACTTGTGGCTCAGTCCCATTCATCTC
1 -TA--TTTTTTGACTTGTGGCTTAGTCCCAATCATCTC
* ** *
8778328 TATTTTTTGACTTGTGGTTTAGTCTTAATCATCTT
1 TATTTTTTGACTTGTGGCTTAGTCCCAATCATCTC
*
8778363 TATTTTTTGATTTGT
1 TATTTTTTGACTTGT
8778378 AGTTCAATTC
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
35 41 0.56
36 2 0.03
37 24 0.33
38 6 0.08
ACGTcount: A:0.16, C:0.18, G:0.13, T:0.53
Consensus pattern (35 bp):
TATTTTTTGACTTGTGGCTTAGTCCCAATCATCTC
Found at i:8778383 original size:143 final size:139
Alignment explanation
Indices: 8778011--8778385 Score: 351
Period size: 143 Copynumber: 2.7 Consensus size: 139
8778001 TATTCTTTTC
* * * *
8778011 TTTTTTTTACTTATGGCTCAATCCCAATCATTTTTATTTTCTAACTTGTGGTTCAGTCTCAGTCA
1 TTTTTTTTACTTGTGGCTCAATCCC-ATCATCTTTATTTTTTAACTTGTGGTTCAGTCTCAATCA
* * * * ** * * *
8778076 TCCTTGTTTATTGACTTGCA-TTTTATCCCAGTCATCCATATTTTTTTACTTACGATTTAATTCC
65 TCTTTATTTTTTGACTTGAAGTTCAATCCCAGTCATCCATATTTTTTGACTTACGACTTAATCCC
*
8778140 AATCATCTTT
130 AATCATCTTA
* * * * * *
8778150 TTTTTTTTAACTTGTAGCTCAATCTCGATCATCTTTATTTTTTAACTTGTGATTCAATCCCGATC
1 TTTTTTTT-ACTTGTGGCTCAATC-CCATCATCTTTATTTTTTAACTTGTGGTTCAGTCTCAATC
** * * *
8778215 AT-TTTCATTTTTTGACTT-AAGGTTCAATCTTAGTCATCCTTATTTTTCTGACTTATGGCTTAA
64 ATCTTT-ATTTTTTGACTTGAA-GTTCAATCCCAGTCATCCATATTTTT-TGACTTACGACTTAA
*
8778278 TCCCAGTCATCCTTA
126 TCCCAATCAT-CTTA
* * * * *
8778293 TTTTTTTTGACTTGTGGCTCAGTCCCATTCATCTCTATTTTTTGACTTGTGGTTTAGTCTTAATC
1 TTTTTTTT-ACTTGTGGCTCAATCCCA-TCATCTTTATTTTTTAACTTGTGGTTCAGTCTCAATC
* *
8778358 ATCTTTATTTTTTGATTTGTAGTTCAAT
64 ATCTTTATTTTTTGACTTGAAGTTCAAT
8778386 TCCGACCATC
Statistics
Matches: 186, Mismatches: 40, Indels: 16
0.77 0.17 0.07
Matches are distributed among these distances:
139 11 0.06
140 56 0.30
141 21 0.11
142 21 0.11
143 73 0.39
144 4 0.02
ACGTcount: A:0.20, C:0.19, G:0.10, T:0.50
Consensus pattern (139 bp):
TTTTTTTTACTTGTGGCTCAATCCCATCATCTTTATTTTTTAACTTGTGGTTCAGTCTCAATCAT
CTTTATTTTTTGACTTGAAGTTCAATCCCAGTCATCCATATTTTTTGACTTACGACTTAATCCCA
ATCATCTTA
Found at i:8778481 original size:38 final size:38
Alignment explanation
Indices: 8778439--8778513 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
8778429 TCTATATTTC
* * *
8778439 CTAACTTACAACTCAATCTCGATTATCGTTATTTTTTT
1 CTAACTTACAACTCAATCTCAATCATCCTTATTTTTTT
**
8778477 CTAACTTACAGTTCAATCTCAATCATCCTTATTTTTT
1 CTAACTTACAACTCAATCTCAATCATCCTTATTTTTT
8778514 ATTTTGCTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.27, C:0.23, G:0.04, T:0.47
Consensus pattern (38 bp):
CTAACTTACAACTCAATCTCAATCATCCTTATTTTTTT
Found at i:8778737 original size:35 final size:35
Alignment explanation
Indices: 8778635--8778737 Score: 111
Period size: 35 Copynumber: 2.9 Consensus size: 35
8778625 TGCAATTCAA
* * * *
8778635 TCTCGATCATCTTTATTTTCTGACTTATGGTTTTG
1 TCTCAATCATCTTTATTTTTTGACTTATGATTTAG
*
8778670 TCTTAATCATCTTTATTTTTTGACTT-TCGATTTAG
1 TCTCAATCATCTTTATTTTTTGACTTAT-GATTTAG
* *
8778705 TCTCAGTCAT-TCTTGTTTTTTGACTTATGATTT
1 TCTCAATCATCT-TTATTTTTTGACTTATGATTT
8778738 CATCACAGTC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
34 2 0.04
35 54 0.95
36 1 0.02
ACGTcount: A:0.17, C:0.16, G:0.12, T:0.56
Consensus pattern (35 bp):
TCTCAATCATCTTTATTTTTTGACTTATGATTTAG
Found at i:8779096 original size:35 final size:35
Alignment explanation
Indices: 8779057--8779138 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 35
8779047 TTTCATTGTG
* *
8779057 GTCATCTATATTCCATAACTTACGGCTTTGTCCTA
1 GTCATCCATATTCCATAACTTACGGCTTAGTCCTA
*
8779092 GTCATCCATATTCCATGACTTACGGCTTAGTCCTA
1 GTCATCCATATTCCATAACTTACGGCTTAGTCCTA
*
8779127 GTCATCCTTATT
1 GTCATCCATATT
8779139 TTTTAACTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (35 bp):
GTCATCCATATTCCATAACTTACGGCTTAGTCCTA
Found at i:8779376 original size:24 final size:22
Alignment explanation
Indices: 8779343--8779386 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
8779333 CTTAAACTAC
*
8779343 AAAAAGCAAAAACAAAACAAAACA
1 AAAAACCAAAAA-AAAA-AAAACA
8779367 AAAAACCAAAAAAAAAAAAA
1 AAAAACCAAAAAAAAAAAAA
8779387 TTCACCTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 4 0.21
24 11 0.58
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (22 bp):
AAAAACCAAAAAAAAAAAAACA
Found at i:8779776 original size:34 final size:34
Alignment explanation
Indices: 8779732--8779797 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
8779722 ACTTGTTTTG
*
8779732 TTATACTTTATTTTTTAAAACCAAAGTTTATATT
1 TTATACTTTATATTTTAAAACCAAAGTTTATATT
* *
8779766 TTATATTTTATATTTTCAAACCAAAGTTTATA
1 TTATACTTTATATTTTAAAACCAAAGTTTATA
8779798 AGTATTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (34 bp):
TTATACTTTATATTTTAAAACCAAAGTTTATATT
Found at i:8780735 original size:1 final size:1
Alignment explanation
Indices: 8780729--8780753 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
8780719 GCTTAACGTG
8780729 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
8780754 CAACAACAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:8781886 original size:13 final size:13
Alignment explanation
Indices: 8781863--8781895 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
8781853 TTTTATTTTG
8781863 TTTTA-TTGTTTA
1 TTTTATTTGTTTA
8781875 TTTTATTTGTTTA
1 TTTTATTTGTTTA
8781888 TTTTATTT
1 TTTTATTT
8781896 TTCTTTATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (13 bp):
TTTTATTTGTTTA
Found at i:8782424 original size:9 final size:9
Alignment explanation
Indices: 8782374--8782443 Score: 61
Period size: 9 Copynumber: 7.6 Consensus size: 9
8782364 TGGGTAGGCC
8782374 TATTTTTAT
1 TATTTTTAT
8782383 T-TTTTTAAT
1 TATTTTT-AT
8782392 TATTTTTAT
1 TATTTTTAT
* *
8782401 TTTTTTTCT
1 TATTTTTAT
*
8782410 AAATTTTTAT
1 -TATTTTTAT
8782420 TATTTATTAT
1 TATTT-TTAT
* *
8782430 TACTATTAT
1 TATTTTTAT
8782439 TATTT
1 TATTT
8782444 ATTAATATAC
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
8 5 0.11
9 24 0.51
10 18 0.38
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (9 bp):
TATTTTTAT
Found at i:8782474 original size:38 final size:37
Alignment explanation
Indices: 8782432--8782519 Score: 97
Period size: 38 Copynumber: 2.4 Consensus size: 37
8782422 TTTATTATTA
*
8782432 CTATTATTATTTATTAATATACATATATATTTACTTAT
1 CTATTATTATTTATTAATATACAGATATATTTACTT-T
** * * * *
8782470 CTATTAACATATATTATTATATAGATATATTTTCTTT
1 CTATTATTATTTATTAATATACAGATATATTTACTTT
8782507 -TATTATTATTTAT
1 CTATTATTATTTAT
8782520 CTATTATTAT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
36 10 0.25
37 1 0.03
38 29 0.73
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.57
Consensus pattern (37 bp):
CTATTATTATTTATTAATATACAGATATATTTACTTT
Found at i:8782528 original size:17 final size:17
Alignment explanation
Indices: 8782497--8782543 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
8782487 TATATAGATA
*
8782497 TATTT-TCTTTTATTAT
1 TATTTATCTATTATTAT
8782513 TATTTATCTATTATTAT
1 TATTTATCTATTATTAT
8782530 TATTTATCTATTAT
1 TATTTATCTATTAT
8782544 AGTATTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 5 0.17
17 24 0.83
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (17 bp):
TATTTATCTATTATTAT
Found at i:8783389 original size:6 final size:6
Alignment explanation
Indices: 8783365--8783509 Score: 61
Period size: 6 Copynumber: 23.7 Consensus size: 6
8783355 CGTTCCCAGG
* * * *
8783365 TTTTAT TTATT-T ATTTAT TTTTAT TATTAT TATTAT TATTAT TATTTAT
1 TTTTAT TT-TTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT
* * * **
8783414 TTATTAGA TTATAA TTTT-T TAGTACT TTTTA- TTTTA- TTTTAT TTTTAT
1 TT-TTA-T TTTTAT TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT
*
8783462 TTCTT-T TTTCT-T TATTTATT TCTTTAT TTTTA- TTTTAT TTTAAT TTTT
1 TT-TTAT TTT-TAT T-TTTA-T T-TTTAT TTTTAT TTTTAT TTTTAT TTTT
8783510 TATTATTTTC
Statistics
Matches: 110, Mismatches: 15, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
5 20 0.18
6 60 0.55
7 22 0.20
8 8 0.07
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:8783393 original size:3 final size:3
Alignment explanation
Indices: 8783379--8783410 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
8783369 ATTTATTTAT
*
8783379 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8783411 TATTTATTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:8783450 original size:5 final size:5
Alignment explanation
Indices: 8783440--8783518 Score: 56
Period size: 5 Copynumber: 14.8 Consensus size: 5
8783430 TTTTAGTACT
*
8783440 TTTTA TTTTA TTTTA TTTTTA TTTCT- TTTT- TCTTTA TTTATT TCTTTA
1 TTTTA TTTTA TTTTA -TTTTA TTT-TA TTTTA T-TTTA TTT-TA T-TTTA
8783488 TTTTTA TTTTA TTTTAA TTTT- TTATTA TTTT
1 -TTTTA TTTTA TTTT-A TTTTA TT-TTA TTTT
8783519 CTTTAAATAA
Statistics
Matches: 62, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
4 4 0.06
5 34 0.55
6 21 0.34
7 3 0.05
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:8783481 original size:19 final size:19
Alignment explanation
Indices: 8783446--8783501 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
8783436 TACTTTTTAT
8783446 TTTA-TTTTATTTTTATTTC
1 TTTATTTTTA-TTTTATTTC
*
8783465 TTTTTTCTTTA-TTTATTTC
1 TTTATT-TTTATTTTATTTC
8783484 TTTATTTTTATTTTATTT
1 TTTATTTTTATTTTATTT
8783502 TAATTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 4 0.12
19 23 0.72
20 1 0.03
21 4 0.12
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTATTTTTATTTTATTTC
Found at i:8783523 original size:12 final size:11
Alignment explanation
Indices: 8783441--8783523 Score: 64
Period size: 11 Copynumber: 7.4 Consensus size: 11
8783431 TTTAGTACTT
*
8783441 TTTATTTTAT-
1 TTTATTTTTTC
*
8783451 TTTA-TTTTTA
1 TTTATTTTTTC
*
8783461 TTTCTTTTTTC
1 TTTATTTTTTC
8783472 TTTATTTATTTC
1 TTTATTT-TTTC
8783484 TTTATTTTTAT-
1 TTTATTTTT-TC
*
8783495 TTTATTTTAATTT
1 TTTATTTT--TTC
8783508 TTTATTATTTTC
1 TTTATT-TTTTC
8783520 TTTA
1 TTTA
8783524 AATAAAATTC
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
9 4 0.07
10 7 0.12
11 21 0.35
12 19 0.32
13 7 0.12
14 2 0.03
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTATTTTTTC
Found at i:8783604 original size:59 final size:58
Alignment explanation
Indices: 8783536--8783873 Score: 366
Period size: 59 Copynumber: 5.7 Consensus size: 58
8783526 TAAAATTCAA
*
8783536 AAAAAATATTTTTACGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAATAAGTTTTTCT
1 AAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTG-AAAATAAGTTTTTCT
* ** * *
8783595 ACAAAATATTTTTGAAAAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTTTTCT
1 AAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG--TTTTTCT
* *
8783656 AAAAAATATTTTGGAGGAAAAGTTGAAA-TATCAATTTTCCTTGAAAATAAGTTTTTTAT
1 AAAAAATATTTT-TAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG-TTTTTCT
* * *
8783715 AAAAAATATTTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG-TTTTCAAA
1 AAAAAATATTTT-TAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTC--T
* * * *
8783775 AAAAAAGTTTTTTTTAGG--AAGTTGAAAGTATCAATTTTTCTCGAAATTAAAG--TTTCT
1 AAAAAA--TATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGTTTTTCT
* *
8783832 AAAAAATA-TTTTGGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTG
8783874 TACAAAAGCA
Statistics
Matches: 242, Mismatches: 25, Indels: 27
0.82 0.09 0.09
Matches are distributed among these distances:
54 6 0.02
55 1 0.00
56 24 0.10
57 6 0.02
58 4 0.02
59 85 0.35
60 79 0.33
61 32 0.13
62 5 0.02
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (58 bp):
AAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTCT
Found at i:8783627 original size:60 final size:60
Alignment explanation
Indices: 8783536--8783873 Score: 381
Period size: 60 Copynumber: 5.7 Consensus size: 60
8783526 TAAAATTCAA
* *
8783536 AAAAAATATTTT-TACGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAATAAG-TTTTTCT
1 AAAAAATATTTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTTG-AAAATAAGTTTTTTCT
* * ** * *
8783595 ACAAAATATTTTTGAAAAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTTTTCT
1 AAAAAATATTTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG-TTTTTTCT
*
8783656 AAAAAATATTTTGGAGGAAAAGTTGAAA-TATCAATTTTCCTTGAAAATAAGTTTTTTAT
1 AAAAAATATTTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTCT
* ****
8783715 AAAAAATATTTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAA
1 AAAAAATATTTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTCT
* ** * * *
8783775 AAAAAAGTTTTTTTTAGG--AAGTTGAAAGTATCAATTTTTCTCGAAATTAAAG---TTTCT
1 AAAAAA-TATTTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGTTTTTTCT
*
8783832 AAAAAATATTTT-G-GGAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAAAATATTTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
8783874 TACAAAAGCA
Statistics
Matches: 240, Mismatches: 31, Indels: 19
0.83 0.11 0.07
Matches are distributed among these distances:
54 2 0.01
56 29 0.12
57 7 0.03
59 80 0.33
60 84 0.35
61 38 0.16
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (60 bp):
AAAAAATATTTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTCT
Found at i:8794263 original size:13 final size:12
Alignment explanation
Indices: 8794219--8794285 Score: 59
Period size: 13 Copynumber: 5.6 Consensus size: 12
8794209 ACTATGCTTG
8794219 AAAAAAAAA-G-
1 AAAAAAAAATGA
*
8794229 AGAAAAAAATGA
1 AAAAAAAAATGA
*
8794241 AATGAAAAAATGA
1 AA-AAAAAAATGA
8794254 AAAAACAAAA-GA
1 AAAAA-AAAATGA
*
8794266 AAAAGGAAAATGA
1 AAAA-AAAAATGA
8794279 AAAAAAA
1 AAAAAAA
8794286 GGAAAAAAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
10 8 0.18
11 1 0.02
12 15 0.33
13 21 0.47
ACGTcount: A:0.79, C:0.01, G:0.13, T:0.06
Consensus pattern (12 bp):
AAAAAAAAATGA
Found at i:8794267 original size:25 final size:22
Alignment explanation
Indices: 8794218--8794293 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 22
8794208 TACTATGCTT
* *
8794218 GAAAAAAAAA-GAGAAAAAAAT
1 GAAAAAAAAATGAAAAAAAAAA
8794239 GAAATGAAAAAATGAAAAAACAAAA
1 GAAA--AAAAAATGAAAAAA-AAAA
*
8794264 GAAAAAGGAAAATG-AAAAAAAAG
1 GAAAAA--AAAATGAAAAAAAAAA
8794287 GAAAAAA
1 GAAAAAA
8794294 GTGAATGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
21 5 0.11
23 17 0.37
24 11 0.24
25 13 0.28
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.05
Consensus pattern (22 bp):
GAAAAAAAAATGAAAAAAAAAA
Found at i:8795354 original size:41 final size:40
Alignment explanation
Indices: 8795309--8795597 Score: 226
Period size: 41 Copynumber: 7.0 Consensus size: 40
8795299 GATTGTCAAT
** *
8795309 GAGCAATTTATTTTTTGAAGTTGTGATGCCTCTGCTTAGAG
1 GAGCAATTTATTTTTAAAAGTTGTGA-GCCTCTGATTAGAG
* * *
8795350 GAGCAATCTATTTTTCAAAGTTGTAATGCCTCTG-TTCAGA-
1 GAGCAATTTATTTTTAAAAGTTGTGA-GCCTCTGATT-AGAG
* * *
8795390 GAGCAATTCACTTTCTAAAAGTCGTTGAGCCTCTGATTAGAG
1 GAGCAATTTA-TTTTTAAAAGTTG-TGAGCCTCTGATTAGAG
** * *
8795432 GAGCCTTTTATTTTTAAAAGTTGTTAAGCCTCTGTTTAGAG
1 GAGCAATTTATTTTTAAAAGTTG-TGAGCCTCTGATTAGAG
* * * **
8795473 GAGCTTTATTTATCTTTCAAAGTCATCGAGCCTCTGATTAGAG
1 GAGC--AATTTATTTTTAAAAGTTGT-GAGCCTCTGATTAGAG
* * *
8795516 GAGCAATTTACTTTTCAAAAATCAT-TGAGCCTCTGATTAGAA
1 GAGCAATTTA-TTTTTAAAAGT--TGTGAGCCTCTGATTAGAG
* *
8795558 GAGCTATTTA-TTTTCAAAGTTGTTGAGCCTCTGATTAGAG
1 GAGCAATTTATTTTTAAAAGTTG-TGAGCCTCTGATTAGAG
8795598 AAACTTTGTT
Statistics
Matches: 198, Mismatches: 37, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
38 1 0.01
40 33 0.17
41 89 0.45
42 43 0.22
43 32 0.16
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (40 bp):
GAGCAATTTATTTTTAAAAGTTGTGAGCCTCTGATTAGAG
Found at i:8795568 original size:126 final size:125
Alignment explanation
Indices: 8795377--8795646 Score: 332
Period size: 125 Copynumber: 2.1 Consensus size: 125
8795367 AAGTTGTAAT
* * *
8795377 GCCTCTGTTCAGA-GAGCAATTCACTTTCTAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCTTTT
1 GCCTCTGTT-AGAGGAGCAATTCACTTTCTAAAAATCATTGAGCCTCTGATTAGAAGAGCCTTTT
* * *
8795441 ATTTTTAAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTTTATTTA-TCTTTCAAAGTCATCGA
65 A-TTTTAAAAGTTGTTAAGCCTCTGATTAGAGAAACTTTATTTAGTCTTTCAAAGTCATCGA
*
8795502 GCCTCTGATTAGAGGAGCAATTTACTTT-TCAAAAATCATTGAGCCTCTGATTAGAAGAG-CTAT
1 GCCTCTG-TTAGAGGAGCAATTCACTTTCT-AAAAATCATTGAGCCTCTGATTAGAAGAGCCT-T
* * * * * *
8795565 TTATTTTCAAAGTTGTTGAGCCTCTGATTAGAGAAACTTTGTTTATGTTTTTCAAAGTCGTTGA
63 TTATTTTAAAAGTTGTTAAGCCTCTGATTAGAGAAACTTTATTTA-GTCTTTCAAAGTCATCGA
8795629 GCCTCTGCTTAGAGGAGC
1 GCCTCTG-TTAGAGGAGC
8795647 TTTGATTAAA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
125 49 0.39
126 45 0.36
127 31 0.25
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (125 bp):
GCCTCTGTTAGAGGAGCAATTCACTTTCTAAAAATCATTGAGCCTCTGATTAGAAGAGCCTTTTA
TTTTAAAAGTTGTTAAGCCTCTGATTAGAGAAACTTTATTTAGTCTTTCAAAGTCATCGA
Found at i:8795629 original size:85 final size:81
Alignment explanation
Indices: 8795336--8795647 Score: 256
Period size: 82 Copynumber: 3.7 Consensus size: 81
8795326 AAGTTGTGAT
* * * * * *
8795336 GCCTCTGCTTAGAGGAGCAATCTATTTTTCAAAGTTG-TAATGCCTCTG-TTCAGA-GAGCAATT
1 GCCTCTGATTAGAGGAGC-TTTTATTTTTCAAAGTCGTTGA-GCCTCTGATT-AGAGGAGCTATT
*
8795398 CA-CTTTCTAAAAGTCGTTGA
63 TATCTTTC--AAAGTCGTTGA
* * * *
8795418 GCCTCTGATTAGAGGAGCCTTTTATTTTTAAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTTTATT
1 GCCTCTGATTAGAGGAG-CTTTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC--TATT
* *
8795483 TATCTTTCAAAGTCATCGA
63 TATCTTTCAAAGTCGTTGA
* * * * *
8795502 GCCTCTGATTAGAGGAGCAATTTACTTTTCAAAAATCATTGAGCCTCTGATTAGAAGAGCTATTT
1 GCCTCTGATTAGAGGAGC-TTTTATTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTATTT
*
8795567 AT-TTTCAAAGTTGTTGA
64 ATCTTTCAAAGTCGTTGA
* * *
8795584 GCCTCTGATTAGAGAAACTTTGTTTATGTTTTTCAAAGTCGTTGAGCCTCTGCTTAGAGGAGCT
1 GCCTCTGATTAGAGGAGC--T-TTTA--TTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCT
8795648 TTGATTAAAT
Statistics
Matches: 188, Mismatches: 29, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
82 69 0.37
83 18 0.10
84 38 0.20
85 53 0.28
86 10 0.05
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (81 bp):
GCCTCTGATTAGAGGAGCTTTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTATTTAT
CTTTCAAAGTCGTTGA
Found at i:8795890 original size:24 final size:25
Alignment explanation
Indices: 8795849--8795913 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
8795839 ATTACTATTA
*
8795849 TTATTTATTAATATACATATA-TAT
1 TTATTTATTATTATACATATACTAT
8795873 TTATTTATCTATTA-ACATATACTAT
1 TTATTTAT-TATTATACATATACTAT
8795898 TATATATTATTATTAT
1 T-TAT-TTATTATTAT
8795914 TATTATTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
24 15 0.43
25 8 0.23
26 8 0.23
27 4 0.11
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.55
Consensus pattern (25 bp):
TTATTTATTATTATACATATACTAT
Found at i:8795910 original size:3 final size:3
Alignment explanation
Indices: 8795895--8795982 Score: 124
Period size: 3 Copynumber: 28.3 Consensus size: 3
8795885 TAACATATAC
8795895 TAT TAT ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
8795941 TAT TAT CTAT TAT TAT TATT TAT CTAT TA- TAT TAT TTT TAT T
1 TAT TAT -TAT TAT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT T
8795983 TTTTCTTTTT
Statistics
Matches: 78, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
2 2 0.03
3 64 0.82
4 12 0.15
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8796786 original size:3 final size:3
Alignment explanation
Indices: 8796778--8796807 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
8796768 ATTTATTTAT
8796778 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8796808 GGTTAGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8796852 original size:21 final size:21
Alignment explanation
Indices: 8796828--8796873 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
8796818 TTTTTAGTAC
8796828 TTTTTATTTTATTTTATTTTA
1 TTTTTATTTTATTTTATTTTA
*
8796849 TTTTTATTTTTTTTTATTTTA
1 TTTTTATTTTATTTTATTTTA
8796870 TTTT
1 TTTT
8796874 ATTATTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTATTTTATTTTATTTTA
Found at i:8796853 original size:31 final size:31
Alignment explanation
Indices: 8796818--8796876 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
8796808 GGTTAGAATT
8796818 TTTTTAGTACTTTTTATTTTATTTTATTTTA
1 TTTTTAGTACTTTTTATTTTATTTTATTTTA
* **
8796849 TTTTTATTTTTTTTTATTTTATTTTATT
1 TTTTTAGTACTTTTTATTTTATTTTATT
8796877 ATTCTTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (31 bp):
TTTTTAGTACTTTTTATTTTATTTTATTTTA
Found at i:8796888 original size:5 final size:5
Alignment explanation
Indices: 8796829--8796876 Score: 78
Period size: 5 Copynumber: 9.4 Consensus size: 5
8796819 TTTTAGTACT
*
8796829 TTTTA TTTTA TTTTA TTTTA TTTTTA TTTTT TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TT
8796877 ATTCTTTTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
5 35 0.88
6 5 0.12
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:8796970 original size:60 final size:60
Alignment explanation
Indices: 8796901--8797123 Score: 319
Period size: 60 Copynumber: 3.7 Consensus size: 60
8796891 ATAAAATTCA
8796901 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAATAAGTTTTTCT
1 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAATAAGTTTTTCT
* *
8796961 AAAAGATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTG-AAAATAAGTTTTTTCT
1 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAATAAG-TTTTTCT
* * *
8797021 AAAAAATATTTTGAAGAAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAG-TTTTCAA
1 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAATAAGTTTTTC-T
* **
8797080 AAAAAAAATTTTT-TTGAAGAAGTTGAAAGTATCAATTTTTCTTG
1 AAAAAATATTTTTAAGGAA-AAGTTGAAAGTATCAATTTTTCTTG
8797124 TACAAAAGCA
Statistics
Matches: 146, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
58 7 0.05
59 43 0.29
60 96 0.66
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.39
Consensus pattern (60 bp):
AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAATAAGTTTTTCT
Found at i:8797112 original size:119 final size:120
Alignment explanation
Indices: 8796901--8797123 Score: 344
Period size: 119 Copynumber: 1.9 Consensus size: 120
8796891 ATAAAATTCA
* * * *
8796901 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAATAAGTTTTTCTAAAAG
1 AAAAAATATTTTGAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAATAAGTTTTTCAAAAAA
*
8796966 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTTTCT
66 AAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTTTCT
8797021 AAAAAATATTTTGAAGAAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAG-TTTTCAAAAAA
1 AAAAAATATTTTGAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAATAAGTTTTTC-AAAAA
**
8797084 AAAATTTTT-TTGAAGAAGTTGAAAGTATCAATTTTTCTTG
65 AAAATTTTTGAGGAA-AAGTTGAAAGTATCAATTTTTCTTG
8797124 TACAAAAGCA
Statistics
Matches: 94, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
118 8 0.09
119 45 0.48
120 41 0.44
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.39
Consensus pattern (120 bp):
AAAAAATATTTTGAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAATAAGTTTTTCAAAAAA
AAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTTTCT
Found at i:8797902 original size:13 final size:13
Alignment explanation
Indices: 8797884--8797934 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
8797874 CATAAATTTG
8797884 TGAAACCCTAAAA
1 TGAAACCCTAAAA
*
8797897 TGAAACTC-AAAA
1 TGAAACCCTAAAA
*
8797909 CTAAAACCCTAAAA
1 -TGAAACCCTAAAA
*
8797923 AGAAACCCTAAA
1 TGAAACCCTAAA
8797935 TCCTAGATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 4 0.13
13 23 0.74
14 4 0.13
ACGTcount: A:0.57, C:0.24, G:0.06, T:0.14
Consensus pattern (13 bp):
TGAAACCCTAAAA
Found at i:8797960 original size:19 final size:19
Alignment explanation
Indices: 8797938--8797985 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
8797928 CCCTAAATCC
8797938 TAGATAAAACTCAAAACCT
1 TAGATAAAACTCAAAACCT
* * **
8797957 TAGATGAGACTTGAAACCT
1 TAGATAAAACTCAAAACCT
8797976 TAGATAAAAC
1 TAGATAAAAC
8797986 CTTATAAACT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.23
Consensus pattern (19 bp):
TAGATAAAACTCAAAACCT
Found at i:8798098 original size:18 final size:19
Alignment explanation
Indices: 8798075--8798114 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
8798065 CTATAAAATG
8798075 AAATCCTAAACAAAA-CCT
1 AAATCCTAAACAAAATCCT
**
8798093 AAATCCTAGGCAAAATCCT
1 AAATCCTAAACAAAATCCT
8798112 AAA
1 AAA
8798115 CATAAGATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.53, C:0.25, G:0.05, T:0.17
Consensus pattern (19 bp):
AAATCCTAAACAAAATCCT
Found at i:8803076 original size:21 final size:21
Alignment explanation
Indices: 8803033--8803073 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8803023 ATAAACTATT
* *
8803033 AAATTTTAATTTTAATAATTA
1 AAATTTAAATTTCAATAATTA
8803054 AAATTTAAATTTCACATAAT
1 AAATTTAAATTTCA-ATAAT
8803074 AAAGTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATTTAAATTTCAATAATTA
Found at i:8815405 original size:25 final size:24
Alignment explanation
Indices: 8815369--8815425 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
8815359 TAATCTTACT
*
8815369 TATTATAACTTAAATTGT-ATATGA
1 TATTATAGCTTAAATT-TAATATGA
8815393 CTATTATAGCTTAAATTTAATATGA
1 -TATTATAGCTTAAATTTAATATGA
*
8815418 TACTATAG
1 TATTATAG
8815426 ATTATCGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 8 0.28
25 21 0.72
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (24 bp):
TATTATAGCTTAAATTTAATATGA
Found at i:8820410 original size:19 final size:19
Alignment explanation
Indices: 8820386--8820487 Score: 109
Period size: 19 Copynumber: 5.3 Consensus size: 19
8820376 GTTTTGCTTT
8820386 GGGTTT-AGGATTTCACCTA
1 GGGTTTCAGG-TTTCACCTA
*
8820405 GGGTTTAAGGTTTCACCTA
1 GGGTTTCAGGTTTCACCTA
* *
8820424 TGGTTTCAGGTTTCACTTA
1 GGGTTTCAGGTTTCACCTA
*
8820443 GGGTTTCAGGTTTCACCGA
1 GGGTTTCAGGTTTCACCTA
* *
8820462 GAGCTTT-TGGATTTCACCTA
1 G-GGTTTCAGG-TTTCACCTA
8820482 GGGTTT
1 GGGTTT
8820488 TAGTTTAGGG
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
19 54 0.77
20 16 0.23
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.39
Consensus pattern (19 bp):
GGGTTTCAGGTTTCACCTA
Found at i:8820429 original size:38 final size:37
Alignment explanation
Indices: 8820387--8820487 Score: 123
Period size: 38 Copynumber: 2.6 Consensus size: 37
8820377 TTTTGCTTTG
*
8820387 GGTTTAGGATTTCACCTAGGGTTTAAGGTTTCACCTA
1 GGTTTAGGATTTCACCTAGGGTTTAAGGTTTCACCGA
* *
8820424 TGGTTTCAGG-TTTCACTTAGGGTTTCAGGTTTCACCGA
1 -GGTTT-AGGATTTCACCTAGGGTTTAAGGTTTCACCGA
*
8820462 GAGCTTTTGGATTTCACCTAGGGTTT
1 G-G-TTTAGGATTTCACCTAGGGTTT
8820488 TAGTTTAGGG
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
37 1 0.02
38 33 0.61
39 20 0.37
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.40
Consensus pattern (37 bp):
GGTTTAGGATTTCACCTAGGGTTTAAGGTTTCACCGA
Found at i:8820498 original size:13 final size:13
Alignment explanation
Indices: 8820480--8820567 Score: 95
Period size: 13 Copynumber: 6.8 Consensus size: 13
8820470 GGATTTCACC
* *
8820480 TAGGGTTTTAGTT
1 TAGGGTTTCATTT
8820493 TAGGGTTTCATTT
1 TAGGGTTTCATTT
** *
8820506 TAGATTTTTATTT
1 TAGGGTTTCATTT
* *
8820519 TGGGGTTTCATTC
1 TAGGGTTTCATTT
*
8820532 AAGGGTTTCATTT
1 TAGGGTTTCATTT
*
8820545 TAGGGTTTCAATT
1 TAGGGTTTCATTT
8820558 TAGGGTTTCA
1 TAGGGTTTCA
8820568 CAAGTTTGTA
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 60 1.00
ACGTcount: A:0.18, C:0.07, G:0.24, T:0.51
Consensus pattern (13 bp):
TAGGGTTTCATTT
Found at i:8821183 original size:3 final size:3
Alignment explanation
Indices: 8821175--8821199 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8821165 TTGTTTATAT
8821175 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
8821200 CTTCACAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8823304 original size:23 final size:24
Alignment explanation
Indices: 8823274--8823340 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
8823264 CCAAGGTGAA
8823274 TTTTTTGTTTTATTTTTTTCATG-
1 TTTTTTGTTTTATTTTTTTCATGC
*
8823297 TTTTTTGTCTTT-TTATTTTTCTTGC
1 TTTTTTGT-TTTATT-TTTTTCATGC
*
8823322 TTTTTGGTTTTTATTTTTT
1 TTTTTTG-TTTTATTTTTT
8823341 ATTTTGTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
23 10 0.27
24 11 0.30
25 13 0.35
26 3 0.08
ACGTcount: A:0.06, C:0.06, G:0.09, T:0.79
Consensus pattern (24 bp):
TTTTTTGTTTTATTTTTTTCATGC
Found at i:8823315 original size:24 final size:23
Alignment explanation
Indices: 8823274--8823379 Score: 78
Period size: 23 Copynumber: 4.6 Consensus size: 23
8823264 CCAAGGTGAA
8823274 TTTTTTGT-TTTATT-TTTTTCAT
1 TTTTTTGTCTTT-TTATTTTTCAT
8823296 GTTTTTTGTCTTTTTATTTTTC-T
1 -TTTTTTGTCTTTTTATTTTTCAT
* *
8823319 TGCTTTTTG-GTTTTTATTTTTTAT
1 T--TTTTTGTCTTTTTATTTTTCAT
* * *
8823343 TTTGTT-TCTTTTTTGTTTTTTAT
1 TTTTTTGTC-TTTTTATTTTTCAT
*
8823366 TTTTTTGGCTTTTT
1 TTTTTTGTCTTTTT
8823380 GCTTCTTTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
22 5 0.07
23 45 0.66
24 18 0.26
ACGTcount: A:0.06, C:0.06, G:0.09, T:0.79
Consensus pattern (23 bp):
TTTTTTGTCTTTTTATTTTTCAT
Found at i:8823342 original size:30 final size:30
Alignment explanation
Indices: 8823306--8823370 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
8823296 GTTTTTTGTC
8823306 TTTTTATTTT-TCTTGC-TTTTTGGTTTTTAT
1 TTTTTATTTTGT-TT-CTTTTTTGGTTTTTAT
*
8823336 TTTTTATTTTGTTTCTTTTTTGTTTTTTAT
1 TTTTTATTTTGTTTCTTTTTTGGTTTTTAT
8823366 TTTTT
1 TTTTT
8823371 TGGCTTTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 1 0.03
30 30 0.94
31 1 0.03
ACGTcount: A:0.06, C:0.05, G:0.08, T:0.82
Consensus pattern (30 bp):
TTTTTATTTTGTTTCTTTTTTGGTTTTTAT
Found at i:8823369 original size:53 final size:53
Alignment explanation
Indices: 8823275--8823420 Score: 174
Period size: 53 Copynumber: 2.7 Consensus size: 53
8823265 CAAGGTGAAT
* *
8823275 TTTTTGTTTTATTTTTTTCATGTTTTTTGTCTTTTTATTTTTCTT-GCTTTTTGGTT-
1 TTTTT-TTTTATTTTTTGC-T-TTTTTTGT-TTTTTATTTTT-TTGGCTTTTTGCTTC
*
8823331 TTTATTTTTTATTTTGTTTC-TTTTTTGTTTTTTATTTTTTTGGCTTTTTGCTTC
1 TTT-TTTTTTATTTT-TTGCTTTTTTTGTTTTTTATTTTTTTGGCTTTTTGCTTC
8823385 TTTTTTTTTATTTTTTGCTTTTTTTGTTTTTT-TTTT
1 TTTTTTTTTATTTTTTGCTTTTTTTGTTTTTTATTTT
8823421 CAAGACGACC
Statistics
Matches: 83, Mismatches: 2, Indels: 14
0.84 0.02 0.14
Matches are distributed among these distances:
52 9 0.11
53 45 0.54
54 11 0.13
56 12 0.14
57 6 0.07
ACGTcount: A:0.05, C:0.06, G:0.09, T:0.80
Consensus pattern (53 bp):
TTTTTTTTTATTTTTTGCTTTTTTTGTTTTTTATTTTTTTGGCTTTTTGCTTC
Found at i:8823378 original size:23 final size:23
Alignment explanation
Indices: 8823329--8823417 Score: 69
Period size: 23 Copynumber: 3.9 Consensus size: 23
8823319 TGCTTTTTGG
*
8823329 TTTTTATTTTTTATTTTGTTT-CT
1 TTTTTGTTTTTTATTTT-TTTGCT
8823352 TTTTTGTTTTTTATTTTTTTGGC-
1 TTTTTGTTTTTTATTTTTTT-GCT
* * *
8823375 TTTTTGCTTCTT-TTTTTTT-AT
1 TTTTTGTTTTTTATTTTTTTGCT
*
8823396 TTTTTGCTTTTTTTGTTTTTTT
1 TTTTTG--TTTTTTATTTTTTT
8823418 TTTCAAGACG
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
21 6 0.11
22 10 0.19
23 30 0.56
24 8 0.15
ACGTcount: A:0.04, C:0.06, G:0.08, T:0.82
Consensus pattern (23 bp):
TTTTTGTTTTTTATTTTTTTGCT
Found at i:8823392 original size:30 final size:26
Alignment explanation
Indices: 8823306--8823419 Score: 90
Period size: 26 Copynumber: 4.2 Consensus size: 26
8823296 GTTTTTTGTC
8823306 TTTTTATTTTTCTTGCTTTTTGGTT-TTTAT
1 TTTTTA-TTTT-TTGCTTTTT--TTCTTT-T
* *
8823336 TTTTTATTTTGTTTC-TTTTTTGTTTT
1 TTTTTATTTT-TTGCTTTTTTTCTTTT
* *
8823362 TTATT-TTTTTGGCTTTTTGCTTCTTTT
1 TTTTTATTTTTTGCTTTTT--TTCTTTT
*
8823389 TTTTTATTTTTTGCTTTTTTTGTTTT
1 TTTTTATTTTTTGCTTTTTTTCTTTT
8823415 TTTTT
1 TTTTT
8823420 TCAAGACGAC
Statistics
Matches: 70, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
24 2 0.03
25 8 0.11
26 18 0.26
27 13 0.19
28 16 0.23
29 7 0.10
30 6 0.09
ACGTcount: A:0.04, C:0.06, G:0.09, T:0.81
Consensus pattern (26 bp):
TTTTTATTTTTTGCTTTTTTTCTTTT
Found at i:8823416 original size:18 final size:18
Alignment explanation
Indices: 8823384--8823418 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8823374 CTTTTTGCTT
8823384 CTTTTTTTTTATTTTTTG
1 CTTTTTTTTTATTTTTTG
8823402 CTTTTTTTGTT-TTTTTT
1 CTTTTTTT-TTATTTTTT
8823419 TTCAAGACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.03, C:0.06, G:0.06, T:0.86
Consensus pattern (18 bp):
CTTTTTTTTTATTTTTTG
Found at i:8823420 original size:30 final size:30
Alignment explanation
Indices: 8823329--8823420 Score: 91
Period size: 30 Copynumber: 3.1 Consensus size: 30
8823319 TGCTTTTTGG
* * *
8823329 TTTTTATTTTTT-ATTTTGTTTCTTTTTTGT
1 TTTTTATTTTTTGCTTTT-TTTGTTTTTTTT
* *
8823359 TTTTTATTTTTTTGGC--TTTTTGCTTCTTTT
1 TTTTTA-TTTTTT-GCTTTTTTTGTTTTTTTT
8823389 TTTTTATTTTTTGCTTTTTTTGTTTTTTTT
1 TTTTTATTTTTTGCTTTTTTTGTTTTTTTT
8823419 TT
1 TT
8823421 CAAGACGACC
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
28 2 0.04
29 6 0.12
30 34 0.68
31 8 0.16
ACGTcount: A:0.04, C:0.05, G:0.08, T:0.83
Consensus pattern (30 bp):
TTTTTATTTTTTGCTTTTTTTGTTTTTTTT
Found at i:8823673 original size:27 final size:29
Alignment explanation
Indices: 8823624--8823685 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
8823614 TATAAGTGTC
8823624 AACTAATTTTGGCTTAAATTTTG-GTGCA
1 AACTAATTTTGGCTTAAATTTTGAGTGCA
* *
8823652 AACTAA-TTTGTGTTTAAA-TTTGAGTGCC
1 AACTAATTTTG-GCTTAAATTTTGAGTGCA
8823680 AACTAA
1 AACTAA
8823686 ACTCGGCTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 8 0.27
28 22 0.73
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (29 bp):
AACTAATTTTGGCTTAAATTTTGAGTGCA
Found at i:8823876 original size:64 final size:65
Alignment explanation
Indices: 8823736--8823938 Score: 213
Period size: 64 Copynumber: 3.2 Consensus size: 65
8823726 TAAAACCTAA
* * *
8823736 ATGCCAACTGA-ACTA-GACTTAAATTTTTGTTGGTGCC-GACTAAATTAAGCTTAAAATTTCAT
1 ATGCCAACT-ACACTAGGACTTAAATTTTTATTGGTGCCAG-CTAAATT-GGCTTAAATTTTCAT
8823798 T-G
63 TGG
* *
8823800 ATGTCAACTACACT-GGACTTAAATTTTTATTGATGCCAGCTAAATTGGCTTAAATTTTCATTGG
1 ATGCCAACTACACTAGGACTTAAATTTTTATTGGTGCCAGCTAAATTGGCTTAAATTTTCATTGG
** * * * *
8823864 ATGCCAGTTACACTAGG-TTTAAATTTTCATTGGTGCCAGCTAAACTAGACTTAAATTTTCATTA
1 ATGCCAACTACACTAGGACTTAAATTTTTATTGGTGCCAGCTAAA-TTGGCTTAAATTTTCATT-
8823928 GG
64 GG
8823930 -TGCCAACTA
1 ATGCCAACTA
8823939 AATTGAGCTT
Statistics
Matches: 117, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
63 15 0.13
64 74 0.63
65 26 0.22
66 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (65 bp):
ATGCCAACTACACTAGGACTTAAATTTTTATTGGTGCCAGCTAAATTGGCTTAAATTTTCATTGG
Found at i:8824014 original size:33 final size:32
Alignment explanation
Indices: 8823737--8824068 Score: 187
Period size: 32 Copynumber: 10.3 Consensus size: 32
8823727 AAAACCTAAA
* * **
8823737 TGCCAACTGAACTAGACTTAAATTTTTGTT-GG
1 TGCCAACTAAACT-GGCTTAAATTTTCATTGGG
* * * * *
8823769 TGCCGACTAAATTAAGCTTAAAATTTCATT-GA
1 TGCCAACTAAACT-GGCTTAAATTTTCATTGGG
* * * *
8823801 TGTCAACTACACTGGACTTAAATTTTTATT-GA
1 TGCCAACTAAACTGG-CTTAAATTTTCATTGGG
* * *
8823833 TGCCAGCTAAATTGGCTTAAATTTTCATTGGA
1 TGCCAACTAAACTGGCTTAAATTTTCATTGGG
** * *
8823865 TGCCAGTTACACTAGGTTTAAATTTTCATT-GG
1 TGCCAACTAAACT-GGCTTAAATTTTCATTGGG
* * *
8823897 TGCCAGCTAAACTAGACTTAAATTTTCATTAGG
1 TGCCAACTAAACT-GGCTTAAATTTTCATTGGG
* *
8823930 TGCCAACTAAATTGAGCTTAAATTTTCATT-AG
1 TGCCAACTAAACTG-GCTTAAATTTTCATTGGG
* * * *
8823962 TGCTAGAATAATCTAGGCTTAAATTTTTTATTGGG
1 TGCCA-ACTAAACT-GGCTTAAA-TTTTCATTGGG
* *
8823997 TACCAACTAAACTGGCTTAAA-ATT--TTGGG
1 TGCCAACTAAACTGGCTTAAATTTTCATTGGG
* * * *
8824026 TCCCAACTAAACCGAGCTTAAATTTTTATT-TG
1 TGCCAACTAAACTG-GCTTAAATTTTCATTGGG
*
8824058 TACCAACTAAA
1 TGCCAACTAAA
8824069 ATAGGCTTCT
Statistics
Matches: 237, Mismatches: 50, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
29 17 0.07
30 7 0.03
31 18 0.08
32 113 0.48
33 64 0.27
34 14 0.06
35 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (32 bp):
TGCCAACTAAACTGGCTTAAATTTTCATTGGG
Found at i:8824015 original size:66 final size:65
Alignment explanation
Indices: 8823882--8824022 Score: 167
Period size: 67 Copynumber: 2.1 Consensus size: 65
8823872 TACACTAGGT
* * * *
8823882 TTAAATTTTCATTGGTGCCAGCTAAACTAGACTTAAATTTTCATTAGGTGCCAACTAAATTGAGC
1 TTAAATTTTCATTAGTGCCAGATAAACTAGACTTAAATTTTCATTAGGTACCAACTAAACTGAGC
* * * * *
8823947 TTAAATTTTCATTAGTGCTAGAATAATCTAGGCTTAAATTTTTTATTGGGTACCAACTAAACTG-
1 TTAAATTTTCATTAGTGCCAG-ATAAACTAGACTTAAA-TTTTCATTAGGTACCAACTAAACTGA
8824011 GC
64 GC
8824013 TTAAAATTTT
1 TT-AAATTTT
8824023 GGGTCCCAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
65 19 0.30
66 17 0.27
67 28 0.44
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (65 bp):
TTAAATTTTCATTAGTGCCAGATAAACTAGACTTAAATTTTCATTAGGTACCAACTAAACTGAGC
Found at i:8824034 original size:29 final size:30
Alignment explanation
Indices: 8823992--8824052 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
8823982 AAATTTTTTA
*
8823992 TTGGGTACCAACTAAACTG-GCTTAAAATT
1 TTGGGTACCAACTAAACCGAGCTTAAAATT
* *
8824021 TTGGGTCCCAACTAAACCGAGCTTAAATTT
1 TTGGGTACCAACTAAACCGAGCTTAAAATT
8824051 TT
1 TT
8824053 ATTTGTACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (30 bp):
TTGGGTACCAACTAAACCGAGCTTAAAATT
Found at i:8824542 original size:22 final size:22
Alignment explanation
Indices: 8824510--8824559 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
8824500 ATACTTTTTT
*
8824510 AACTAATCTAGGCTTATGTACC
1 AACTAAACTAGGCTTATGTACC
* *
8824532 AGCTAAACTAGGCTTATGTGCC
1 AACTAAACTAGGCTTATGTACC
8824554 AACTAA
1 AACTAA
8824560 TTTAGATTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (22 bp):
AACTAAACTAGGCTTATGTACC
Found at i:8824583 original size:158 final size:158
Alignment explanation
Indices: 8824290--8824592 Score: 414
Period size: 158 Copynumber: 1.9 Consensus size: 158
8824280 ATACCTGAAG
* * * *
8824290 ATTTTTGTGGATTCAAAAGAATTTCACCACTTAAAGGGGATAAAAAGAGTGTATACTTTTTCAAC
1 ATTTTTGTGGATTCAAAAAAACTTCACCACTTAAAAGAGATAAAAAGAGTGTATACTTTTTCAAC
* * * *
8824355 TAATATAAGCTTATATGCTAGCTAAACTGAACTTATGTGCCAGCTAAATTAGGCTTATGTACCAA
66 TAATATAAGCTTATATACCAGCTAAACTGAACTTATGTGCCAACTAAATTAGGATTATGTACCAA
*
8824420 TTAATCTAGACTTGCTCTGCACCCAAAA
131 CTAATCTAGACTTGCTCTGCACCCAAAA
* *
8824448 ATTTTTGTGGATTCAAAAAAACTTCATCACTTAAAAGAGATAAAAAGAGTGTATACTTTTTTAAC
1 ATTTTTGTGGATTCAAAAAAACTTCACCACTTAAAAGAGATAAAAAGAGTGTATACTTTTTCAAC
* * * * *
8824513 TAATCTAGGCTTATGTACCAGCTAAACT-AGGCTTATGTGCCAACTAATTTA-GATT-TGTATGC
66 TAATATAAGCTTATATACCAGCTAAACTGA-ACTTATGTGCCAACTAAATTAGGATTATGTA--C
8824575 CAACTAATCTAGACTTGC
128 CAACTAATCTAGACTTGC
8824593 ATTCCCACTA
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
156 4 0.03
157 4 0.03
158 118 0.94
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (158 bp):
ATTTTTGTGGATTCAAAAAAACTTCACCACTTAAAAGAGATAAAAAGAGTGTATACTTTTTCAAC
TAATATAAGCTTATATACCAGCTAAACTGAACTTATGTGCCAACTAAATTAGGATTATGTACCAA
CTAATCTAGACTTGCTCTGCACCCAAAA
Found at i:8825613 original size:21 final size:23
Alignment explanation
Indices: 8825567--8825620 Score: 76
Period size: 21 Copynumber: 2.4 Consensus size: 23
8825557 CAGCCATTCA
*
8825567 TTTTTTTCTTTTCTTTCTTCATT
1 TTTTTTTCTTTTCTTTCTTCAGT
*
8825590 TTTTTTTCTTTT-TTT-TTTAGT
1 TTTTTTTCTTTTCTTTCTTCAGT
8825611 TTTTTTTCTT
1 TTTTTTTCTT
8825621 CACTTTTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 14 0.48
22 3 0.10
23 12 0.41
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.83
Consensus pattern (23 bp):
TTTTTTTCTTTTCTTTCTTCAGT
Found at i:8825627 original size:14 final size:12
Alignment explanation
Indices: 8825567--8825634 Score: 52
Period size: 12 Copynumber: 5.6 Consensus size: 12
8825557 CAGCCATTCA
8825567 TTTTTTT-CTTT
1 TTTTTTTACTTT
* *
8825578 TCTTTCTT-CATT
1 T-TTTTTTACTTT
8825590 TTTTTTT-CTTT
1 TTTTTTTACTTT
*
8825601 TTTTTTTAGTTT
1 TTTTTTTACTTT
8825613 TTTTTCTTCACTTT
1 TTTTT-TT-ACTTT
8825627 TTCTTTTT
1 TT-TTTTT
8825635 CATTCTTTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
11 16 0.35
12 17 0.37
13 2 0.04
14 8 0.17
15 3 0.07
ACGTcount: A:0.04, C:0.13, G:0.01, T:0.81
Consensus pattern (12 bp):
TTTTTTTACTTT
Found at i:8825634 original size:21 final size:21
Alignment explanation
Indices: 8825567--8825634 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
8825557 CAGCCATTCA
8825567 TTTTTTTCTTTTCTTTCTTCATT
1 TTTTTTTCTTTTCTTT-TTC-TT
* **
8825590 TTTTTTTCTTTTTTTTTTAGT
1 TTTTTTTCTTTTCTTTTTCTT
**
8825611 TTTTTTTCTTCACTTTTTCTT
1 TTTTTTTCTTTTCTTTTTCTT
8825632 TTT
1 TTT
8825635 CATTCTTTCA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 20 0.54
22 2 0.05
23 15 0.41
ACGTcount: A:0.04, C:0.13, G:0.01, T:0.81
Consensus pattern (21 bp):
TTTTTTTCTTTTCTTTTTCTT
Found at i:8825636 original size:14 final size:13
Alignment explanation
Indices: 8825588--8825636 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
8825578 TCTTTCTTCA
8825588 TTTTTTTTT--CT
1 TTTTTTTTTCACT
*
8825599 TTTTTTTTT-AGT
1 TTTTTTTTTCACT
8825611 TTTTTTTCTTCACT
1 TTTTTTT-TTCACT
8825625 TTTTCTTTTTCA
1 TTTT-TTTTTCA
8825637 TTCTTTCACT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 9 0.28
12 8 0.25
13 2 0.06
14 10 0.31
15 3 0.09
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.80
Consensus pattern (13 bp):
TTTTTTTTTCACT
Found at i:8828408 original size:20 final size:20
Alignment explanation
Indices: 8828383--8828421 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8828373 TTCTATTGAG
*
8828383 TGAATACATAAATGAATGAA
1 TGAATAAATAAATGAATGAA
8828403 TGAATAAATAAATGAATGA
1 TGAATAAATAAATGAATGA
8828422 CAAAGATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.15, T:0.26
Consensus pattern (20 bp):
TGAATAAATAAATGAATGAA
Found at i:8828409 original size:16 final size:16
Alignment explanation
Indices: 8828390--8828421 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8828380 GAGTGAATAC
*
8828390 ATAAATGAATGAATGA
1 ATAAATAAATGAATGA
8828406 ATAAATAAATGAATGA
1 ATAAATAAATGAATGA
8828422 CAAAGATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
ATAAATAAATGAATGA
Found at i:8831740 original size:19 final size:19
Alignment explanation
Indices: 8831712--8831797 Score: 102
Period size: 19 Copynumber: 4.5 Consensus size: 19
8831702 TAGGTTTTCA
*
8831712 TTTAGGGTTTAAAC-TAAGG
1 TTTAGGGTTT-TACTTAAGG
*
8831731 TTTGGGGTTTTACTTAAGG
1 TTTAGGGTTTTACTTAAGG
8831750 TTTAGGGTTTTACTTAAGG
1 TTTAGGGTTTTACTTAAGG
* * *
8831769 TTTAGGGTTTCACCTAGGG
1 TTTAGGGTTTTACTTAAGG
*
8831788 TTTAAGGTTT
1 TTTAGGGTTT
8831798 CACCTAGAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
18 2 0.03
19 57 0.97
ACGTcount: A:0.21, C:0.07, G:0.28, T:0.44
Consensus pattern (19 bp):
TTTAGGGTTTTACTTAAGG
Found at i:8831798 original size:19 final size:19
Alignment explanation
Indices: 8831712--8831809 Score: 88
Period size: 19 Copynumber: 5.2 Consensus size: 19
8831702 TAGGTTTTCA
* * *
8831712 TTTAGGGTTTAAACTAAGG
1 TTTAGGGTTTCACCTAGGG
* * * *
8831731 TTTGGGGTTTTACTTAAGG
1 TTTAGGGTTTCACCTAGGG
* * *
8831750 TTTAGGGTTTTACTTAAGG
1 TTTAGGGTTTCACCTAGGG
8831769 TTTAGGGTTTCACCTAGGG
1 TTTAGGGTTTCACCTAGGG
* *
8831788 TTTAAGGTTTCACCTAGAG
1 TTTAGGGTTTCACCTAGGG
8831807 TTT
1 TTT
8831810 CAGATTTCAT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 69 1.00
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.43
Consensus pattern (19 bp):
TTTAGGGTTTCACCTAGGG
Found at i:8831817 original size:19 final size:19
Alignment explanation
Indices: 8831776--8831818 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
8831766 AGGTTTAGGG
* *
8831776 TTTCACCTAGGGTTTAAGG
1 TTTCACCTAGAGTTTAAGA
*
8831795 TTTCACCTAGAGTTTCAGA
1 TTTCACCTAGAGTTTAAGA
8831814 TTTCA
1 TTTCA
8831819 TTTACAGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (19 bp):
TTTCACCTAGAGTTTAAGA
Found at i:8831910 original size:25 final size:25
Alignment explanation
Indices: 8831850--8831915 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
8831840 TATGGTTTTT
*
8831850 GGGTTTCATTATAAGGTTTTAGTTTA
1 GGGTTTCATT-TTAGGTTTTAGTTTA
*
8831876 GGGTTTCATTTTAGTGTTTTA-TTTG
1 GGGTTTCATTTTAG-GTTTTAGTTTA
8831901 GGGTTTCATTTTAGG
1 GGGTTTCATTTTAGG
8831916 ATTCCATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 1 0.03
25 20 0.54
26 16 0.43
ACGTcount: A:0.17, C:0.05, G:0.26, T:0.53
Consensus pattern (25 bp):
GGGTTTCATTTTAGGTTTTAGTTTA
Found at i:8831911 original size:12 final size:12
Alignment explanation
Indices: 8831850--8831911 Score: 52
Period size: 13 Copynumber: 4.9 Consensus size: 12
8831840 TATGGTTTTT
8831850 GGGTTTCATTATA
1 GGGTTTCATT-TA
* *
8831863 AGGTTTTAGTTTA
1 GGGTTTCA-TTTA
8831876 GGGTTTCATTTTA
1 GGGTTTCA-TTTA
* * *
8831889 GTGTTTTATTTG
1 GGGTTTCATTTA
8831901 GGGTTTCATTT
1 GGGTTTCATTT
8831912 TAGGATTCCA
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
12 12 0.32
13 24 0.63
14 2 0.05
ACGTcount: A:0.16, C:0.05, G:0.24, T:0.55
Consensus pattern (12 bp):
GGGTTTCATTTA
Found at i:8831924 original size:25 final size:25
Alignment explanation
Indices: 8831876--8831924 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
8831866 TTTTAGTTTA
**
8831876 GGGTTTCATTTTAGTGTTTTATTTG
1 GGGTTTCATTTTAGTGTTCCATTTG
8831901 GGGTTTCATTTTAG-GATTCCATTT
1 GGGTTTCATTTTAGTG-TTCCATTT
8831925 TGAGATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.14, C:0.08, G:0.22, T:0.55
Consensus pattern (25 bp):
GGGTTTCATTTTAGTGTTCCATTTG
Found at i:8832083 original size:3 final size:3
Alignment explanation
Indices: 8832075--8832135 Score: 79
Period size: 3 Copynumber: 20.0 Consensus size: 3
8832065 TTAATTAAAA
*
8832075 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATCT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T ATT ATT
*
8832122 ATT -TT ATT TTT ATT
1 ATT ATT ATT ATT ATT
8832136 TTTAATATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8832297 original size:6 final size:6
Alignment explanation
Indices: 8832286--8832321 Score: 51
Period size: 5 Copynumber: 6.5 Consensus size: 6
8832276 TTATTAATCA
8832286 AATTAT AATTAT AATTAT AA-TAT AA-TAT AA-TAT AAT
1 AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT AAT
8832322 AATTTTGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 15 0.52
6 14 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AATTAT
Found at i:8834398 original size:20 final size:20
Alignment explanation
Indices: 8834373--8834410 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8834363 TGACAATTAA
*
8834373 ATTATTACTAATTTATTACT
1 ATTATTACTAAATTATTACT
*
8834393 ATTATTATTAAATTATTA
1 ATTATTACTAAATTATTA
8834411 ATGATTTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTATTACTAAATTATTACT
Found at i:8834484 original size:66 final size:66
Alignment explanation
Indices: 8834402--8834540 Score: 174
Period size: 66 Copynumber: 2.1 Consensus size: 66
8834392 TATTATTATT
* * * * *
8834402 AAATTATTAATGATTTACTATTAAGTTATGA-ATGATTTACTACT-AAGTTATTGATGATTTAGT
1 AAATTATTAATAATTTACTATAAAGTTA-GACATAATTTACTA-TGAAGTTATCGATGATTTACT
8834465 ACA
64 ACA
* * *
8834468 AAGTTATTAATAATTTATTATAAAGTTAGACCTAATTTACTATGAAGTTATCGATGATTTACTAC
1 AAATTATTAATAATTTACTATAAAGTTAGACATAATTTACTATGAAGTTATCGATGATTTACTAC
8834533 A
66 A
8834534 AAATTAT
1 AAATTAT
8834541 CATTGATATA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
65 3 0.05
66 59 0.95
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (66 bp):
AAATTATTAATAATTTACTATAAAGTTAGACATAATTTACTATGAAGTTATCGATGATTTACTAC
A
Found at i:8834492 original size:22 final size:22
Alignment explanation
Indices: 8834401--8834540 Score: 106
Period size: 22 Copynumber: 6.4 Consensus size: 22
8834391 CTATTATTAT
8834401 TAAA-TTATTAATGATTTACTA
1 TAAAGTTATTAATGATTTACTA
* *
8834422 TTAAGTTATGAATGATTTACTA
1 TAAAGTTATTAATGATTTACTA
* *
8834444 CT-AAGTTATTGATGATTTAGTA
1 -TAAAGTTATTAATGATTTACTA
* * *
8834466 CAAAGTTATTAATAATTTATTA
1 TAAAGTTATTAATGATTTACTA
* * *
8834488 TAAAGTTA-GACCTAATTTACTA
1 TAAAGTTATTA-ATGATTTACTA
* **
8834510 TGAAGTTATCGATGATTTACTA
1 TAAAGTTATTAATGATTTACTA
* *
8834532 CAAAATTAT
1 TAAAGTTAT
8834541 CATTGATATA
Statistics
Matches: 93, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
21 4 0.04
22 88 0.95
23 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (22 bp):
TAAAGTTATTAATGATTTACTA
Found at i:8834560 original size:66 final size:66
Alignment explanation
Indices: 8834436--8834561 Score: 148
Period size: 66 Copynumber: 1.9 Consensus size: 66
8834426 GTTATGAATG
* * * * * *
8834436 ATTTACTACTAAGTTATTGATGATTTAGTACAAAGTTATTAATAATTTATTATAAAGTTAGACCT
1 ATTTACTACTAAGTTATCGATGATTTACTACAAAATTATCAATAATATATAATAAAGTTAGACCT
8834501 A
66 A
* *
8834502 ATTTACTA-TGAAGTTATCGATGATTTACTACAAAATTATCATTGATATATAACT-AAGTTA
1 ATTTACTACT-AAGTTATCGATGATTTACTACAAAATTATCAATAATATATAA-TAAAGTTA
8834562 TAAGTGACTT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
65 1 0.02
66 48 0.96
67 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (66 bp):
ATTTACTACTAAGTTATCGATGATTTACTACAAAATTATCAATAATATATAATAAAGTTAGACCT
A
Found at i:8834578 original size:22 final size:22
Alignment explanation
Indices: 8834553--8834601 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
8834543 TTGATATATA
8834553 ACTAAGTTATAAGTGACTTATT
1 ACTAAGTTATAAGTGACTTATT
* * *
8834575 ACTACGTTATTAGTGATTTATT
1 ACTAAGTTATAAGTGACTTATT
*
8834597 GCTAA
1 ACTAA
8834602 ATTCAGTGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ACTAAGTTATAAGTGACTTATT
Found at i:8834710 original size:22 final size:21
Alignment explanation
Indices: 8834650--8834732 Score: 67
Period size: 22 Copynumber: 3.8 Consensus size: 21
8834640 ATTACCATTG
* *
8834650 ATTTATTACTAAATTTTCAAT
1 ATTTACTACTAAATTATCAAT
* * *
8834671 AGTTAGCTATTAAGTTATCAACT
1 ATTTA-CTACTAAATTATCAA-T
*
8834694 ATTTACTACTAAATTATCATT
1 ATTTACTACTAAATTATCAAT
* *
8834715 GAATTACTACTAAGTTAT
1 -ATTTACTACTAAATTAT
8834733 TTATGATATA
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
21 5 0.10
22 38 0.79
23 5 0.10
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (21 bp):
ATTTACTACTAAATTATCAAT
Found at i:8835013 original size:21 final size:22
Alignment explanation
Indices: 8834961--8835006 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
8834951 AACAAATAAG
**
8834961 TTACTACTACCTTATCACTGAT
1 TTACTACTAAATTATCACTGAT
8834983 TTACTACTAAATTATCA-TGAT
1 TTACTACTAAATTATCACTGAT
8835004 TTA
1 TTA
8835007 TCACTAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (22 bp):
TTACTACTAAATTATCACTGAT
Found at i:8835029 original size:11 final size:11
Alignment explanation
Indices: 8835015--8835157 Score: 69
Period size: 11 Copynumber: 13.1 Consensus size: 11
8835005 TATCACTAAG
*
8835015 TTATAAATAAT
1 TTATTAATAAT
* *
8835026 TTATTACTAAG
1 TTATTAATAAT
* **
8835037 TTATAAACGAT
1 TTATTAATAAT
* *
8835048 TTATTACTAAG
1 TTATTAATAAT
*
8835059 TTATTGATAAT
1 TTATTAATAAT
* *
8835070 TT-CTAATAAG
1 TTATTAATAAT
8835080 TTATTAATAAT
1 TTATTAATAAT
8835091 TTATT-ATAAT
1 TTATTAATAAT
* *
8835101 GTTATTACTGAT
1 -TTATTAATAAT
* *
8835113 TTACT-ATAAAG
1 TTATTAAT-AAT
*
8835124 TTATTGATAAT
1 TTATTAATAAT
* *
8835135 TTACT-ATAAAG
1 TTATTAAT-AAT
8835146 TTATTAATAAT
1 TTATTAATAAT
8835157 T
1 T
8835158 AACTAATTTA
Statistics
Matches: 92, Mismatches: 33, Indels: 14
0.66 0.24 0.10
Matches are distributed among these distances:
10 15 0.16
11 70 0.76
12 7 0.08
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.48
Consensus pattern (11 bp):
TTATTAATAAT
Found at i:8835034 original size:22 final size:21
Alignment explanation
Indices: 8835002--8835157 Score: 141
Period size: 22 Copynumber: 7.1 Consensus size: 21
8834992 AATTATCATG
* *
8835002 ATTTATCACTAAGTTATAAATA
1 ATTTATTA-TAAGTTATTAATA
* **
8835024 ATTTATTACTAAGTTATAAACG
1 ATTTATTA-TAAGTTATTAATA
*
8835046 ATTTATTACTAAGTTATTGATA
1 ATTTATTA-TAAGTTATTAATA
* *
8835068 ATTTCTAATAAGTTATTAATA
1 ATTTATTATAAGTTATTAATA
* *
8835089 ATTTATTATAATGTTATTACTG
1 ATTTATTATAA-GTTATTAATA
* *
8835111 ATTTACTATAAAGTTATTGATA
1 ATTTATTAT-AAGTTATTAATA
*
8835133 ATTTACTATAAAGTTATTAATA
1 ATTTATTAT-AAGTTATTAATA
8835155 ATT
1 ATT
8835158 AACTAATTTA
Statistics
Matches: 113, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
21 21 0.19
22 90 0.80
23 2 0.02
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (21 bp):
ATTTATTATAAGTTATTAATA
Found at i:8835034 original size:65 final size:65
Alignment explanation
Indices: 8834940--8835137 Score: 172
Period size: 65 Copynumber: 3.0 Consensus size: 65
8834930 AAAAAAAATG
* * * * ** * *
8834940 TTATCACTAA-TAACAAATAAGTTACTACTACCTTATCACTGATTTACTACTAAATTATCATGAT
1 TTATCACTAAGTTATAAATAATTTATTACTAAGTTATAACTGATTTACTACTAAATTATCATAAT
* * *
8835004 TTATCACTAAGTTATAAATAATTTATTACTAAGTTATAAAC-GATTTATTACTAAGTTATTGATA
1 TTATCACTAAGTTATAAATAATTTATTACTAAGTTAT-AACTGATTTACTACTAAATTA-TCATA
8835068 AT
64 AT
* * * * *
8835070 TTCT-AATAAGTTATTAATAATTTATTA-TAATGTTATTACTGATTTACTA-TAAAGTTATTGAT
1 TTATCACTAAGTTATAAATAATTTATTACTAA-GTTATAACTGATTTACTACTAAA-TTA-TCAT
8835132 AAT
63 AAT
8835135 TTA
1 TTA
8835138 CTATAAAGTT
Statistics
Matches: 110, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
64 18 0.16
65 82 0.75
66 10 0.09
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (65 bp):
TTATCACTAAGTTATAAATAATTTATTACTAAGTTATAACTGATTTACTACTAAATTATCATAAT
Found at i:8835187 original size:22 final size:22
Alignment explanation
Indices: 8835161--8835225 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
8835151 AATAATTAAC
*
8835161 TAATTTATAACCAAATTATCAT
1 TAATTTATAACTAAATTATCAT
*
8835183 TAATTTATAAATAAATTATCAAT
1 TAATTTATAACTAAATTATC-AT
* *
8835206 GAA-TTACAACTAAATTATCA
1 TAATTTATAACTAAATTATCA
8835226 ATGTTTTACT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 1 0.03
22 32 0.86
23 4 0.11
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (22 bp):
TAATTTATAACTAAATTATCAT
Found at i:8835255 original size:22 final size:22
Alignment explanation
Indices: 8835230--8835302 Score: 96
Period size: 22 Copynumber: 3.3 Consensus size: 22
8835220 TTATCAATGT
8835230 TTTACTA-TAACGTTATTAGTAA
1 TTTACTACTAA-GTTATTAGTAA
8835252 TTTACTACTAAGTTATT-GATAA
1 TTTACTACTAAGTTATTAG-TAA
* *
8835274 TTTACTACTAAATTATTAGTGA
1 TTTACTACTAAGTTATTAGTAA
8835296 TTTACTA
1 TTTACTA
8835303 TTATACTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
21 1 0.02
22 41 0.89
23 4 0.09
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.47
Consensus pattern (22 bp):
TTTACTACTAAGTTATTAGTAA
Found at i:8835262 original size:44 final size:44
Alignment explanation
Indices: 8835173--8835302 Score: 104
Period size: 44 Copynumber: 3.0 Consensus size: 44
8835163 ATTTATAACC
* * * * *
8835173 AAATTATCATTAATTTA-TAAATAAATTATCAATGAA-TTACAACT
1 AAATTATCAATAATTTACT-ACTAAATTATTAGT-AATTTACTACT
** *
8835217 AAATTATCAATGTTTTACTA-TAACGTTATTAGTAATTTACTACT
1 AAATTATCAATAATTTACTACTAA-ATTATTAGTAATTTACTACT
* ** *
8835261 AAGTTATTGATAATTTACTACTAAATTATTAGTGATTTACTA
1 AAATTATCAATAATTTACTACTAAATTATTAGTAATTTACTA
8835303 TTATACTATT
Statistics
Matches: 68, Mismatches: 14, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
43 5 0.07
44 59 0.87
45 4 0.06
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (44 bp):
AAATTATCAATAATTTACTACTAAATTATTAGTAATTTACTACT
Found at i:8835320 original size:22 final size:22
Alignment explanation
Indices: 8835243--8835326 Score: 64
Period size: 22 Copynumber: 3.8 Consensus size: 22
8835233 ACTATAACGT
* **
8835243 TATTAGTAATTTACTACTAAGT
1 TATTAGTGATTTACTACTAAAC
* *
8835265 TATT-GATAATTTACTACTAAAT
1 TATTAG-TGATTTACTACTAAAC
* *
8835287 TATTAGTGATTTACTATTATAC
1 TATTAGTGATTTACTACTAAAC
*
8835309 TATTA-TGCATTTGCTACT
1 TATTAGTG-ATTTACTACT
8835327 TTGTTATCAT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
21 3 0.06
22 48 0.92
23 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.48
Consensus pattern (22 bp):
TATTAGTGATTTACTACTAAAC
Done.