Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 120 of 130
Found at i:23838102 original size:23 final size:22
Alignment explanation
Indices: 23838071--23838113 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
23838061 AAAATCTAGG
*
23838071 TGAAGTTTTTTAAGTAAAAATTA
1 TGAAATTTTTT-AGTAAAAATTA
*
23838094 TGAAATTTTTTATTAAAAAT
1 TGAAATTTTTTAGTAAAAAT
23838114 GATTAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (22 bp):
TGAAATTTTTTAGTAAAAATTA
Found at i:23838121 original size:22 final size:23
Alignment explanation
Indices: 23838071--23838121 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
23838061 AAAATCTAGG
* *
23838071 TGAAGTTTTTTAAGTAAAAATTA
1 TGAAATTTTTTAAGTAAAAATGA
*
23838094 TGAAATTTTTT-ATTAAAAATGA
1 TGAAATTTTTTAAGTAAAAATGA
*
23838116 TTAAAT
1 TGAAAT
23838122 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (23 bp):
TGAAATTTTTTAAGTAAAAATGA
Found at i:23838412 original size:12 final size:11
Alignment explanation
Indices: 23838379--23838411 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
23838369 TGATTTAGAT
23838379 TTTTTATAAAA
1 TTTTTATAAAA
23838390 TTTTTATAAAA
1 TTTTTATAAAA
23838401 TTATTTA-AAAA
1 TT-TTTATAAAA
23838412 AAAACTTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTTATAAAA
Found at i:23841289 original size:11 final size:11
Alignment explanation
Indices: 23841271--23841313 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
23841261 AATCCTATAA
23841271 GAGATTTGTTT
1 GAGATTTGTTT
* *
23841282 GGGATTTGTTA
1 GAGATTTGTTT
23841293 GAGATTTGTTT
1 GAGATTTGTTT
23841304 GAGATTTGTT
1 GAGATTTGTT
23841314 AGATATTGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:23841298 original size:22 final size:22
Alignment explanation
Indices: 23841270--23841316 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
23841260 AAATCCTATA
*
23841270 AGAGATTTGTTTGGGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
23841292 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
23841314 AGA
1 AGA
23841317 TATTGCTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:23841430 original size:52 final size:51
Alignment explanation
Indices: 23841337--23841492 Score: 179
Period size: 52 Copynumber: 3.0 Consensus size: 51
23841327 TGGACAAGAA
* ** * * *
23841337 GACTTGCAAAAGAAGAATTCTAAAAGAAAGAAGATTTTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGGGAAA-AGGATTCTTAATAGGCAAGTTT
23841389 GACTTGCAAGAGAAGAATTCTAAGGGGAAAAGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAA-GGGAAAAGGATTCTTAATAGGCAAGTTT
* * * * *
23841441 GACTTAC-AGAAGAAGAATTCTAAGGGAGAGGGATTCTTAGTGGGCAAGTTT
1 GACTTGCAAG-AGAAGAATTCTAAGGGAAAAGGATTCTTAATAGGCAAGTTT
23841492 G
1 G
23841493 TATGGTTATA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
51 27 0.30
52 60 0.66
53 4 0.04
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.26
Consensus pattern (51 bp):
GACTTGCAAGAGAAGAATTCTAAGGGAAAAGGATTCTTAATAGGCAAGTTT
Found at i:23847126 original size:27 final size:27
Alignment explanation
Indices: 23847096--23847147 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
23847086 TAAAATTATG
23847096 ATAAGATAAAATAAAATAATATCATAT
1 ATAAGATAAAATAAAATAATATCATAT
* * * *
23847123 ATAAGATTAGATTAAATAATGTCAT
1 ATAAGATAAAATAAAATAATATCAT
23847148 CTTAATTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.33
Consensus pattern (27 bp):
ATAAGATAAAATAAAATAATATCATAT
Found at i:23850939 original size:12 final size:12
Alignment explanation
Indices: 23850912--23850952 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
23850902 AAAATTTTTT
23850912 TTTAA-AAAATAA
1 TTTAATAAAA-AA
*
23850924 TTTAATAAAAAT
1 TTTAATAAAAAA
23850936 TTTAATAAAAAA
1 TTTAATAAAAAA
23850948 TTTAA
1 TTTAA
23850953 ATTAATAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 22 0.85
13 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TTTAATAAAAAA
Found at i:23853187 original size:15 final size:15
Alignment explanation
Indices: 23853169--23853199 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23853159 ATTTTTTGGA
23853169 TTTGAATTTTAAGGT
1 TTTGAATTTTAAGGT
*
23853184 TTTGGATTTTAAGGT
1 TTTGAATTTTAAGGT
23853199 T
1 T
23853200 GGGGATTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (15 bp):
TTTGAATTTTAAGGT
Found at i:23853205 original size:15 final size:15
Alignment explanation
Indices: 23853174--23853208 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
23853164 TTGGATTTGA
**
23853174 ATTTTAAGGTTTTGG
1 ATTTTAAGGTTGGGG
23853189 ATTTTAAGGTTGGGG
1 ATTTTAAGGTTGGGG
23853204 ATTTT
1 ATTTT
23853209 GATTTTAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (15 bp):
ATTTTAAGGTTGGGG
Found at i:23853234 original size:49 final size:49
Alignment explanation
Indices: 23853175--23853292 Score: 121
Period size: 49 Copynumber: 2.4 Consensus size: 49
23853165 TGGATTTGAA
* *
23853175 TTTTAAGGTTTTGGATTTTAAGGTTGGGGATTTTGATTTTAGGGTTAGAG
1 TTTT-AGGTTTTGGATTTTAAGGTTGAGGATTTTGAATTTAGGGTTAGAG
* ** * * *
23853225 TTTTAGGTTTTCGATTTTGGGGTTTAGGTTTTTGAATTTAGGGTTTGAG
1 TTTTAGGTTTTGGATTTTAAGGTTGAGGATTTTGAATTTAGGGTTAGAG
* *
23853274 GTTTGGTGTTTTGG-TTTTA
1 TTTTAG-GTTTTGGATTTTA
23853293 GGATTTAATT
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
49 45 0.82
50 10 0.18
ACGTcount: A:0.15, C:0.01, G:0.31, T:0.53
Consensus pattern (49 bp):
TTTTAGGTTTTGGATTTTAAGGTTGAGGATTTTGAATTTAGGGTTAGAG
Found at i:23853249 original size:22 final size:22
Alignment explanation
Indices: 23853219--23853277 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
23853209 GATTTTAGGG
*
23853219 TTAGAGTTTTAGGTTTTCG-AT
1 TTAGGGTTTTAGGTTTTCGAAT
* * *
23853240 TTTGGGGTTTAGGTTTTTGAAT
1 TTAGGGTTTTAGGTTTTCGAAT
*
23853262 TTAGGGTTTGAGGTTT
1 TTAGGGTTTTAGGTTT
23853278 GGTGTTTTGG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 15 0.50
22 15 0.50
ACGTcount: A:0.15, C:0.02, G:0.31, T:0.53
Consensus pattern (22 bp):
TTAGGGTTTTAGGTTTTCGAAT
Found at i:23853250 original size:21 final size:21
Alignment explanation
Indices: 23853226--23853277 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
23853216 GGGTTAGAGT
* *
23853226 TTTAGGTTTTCGATTTTGGGG
1 TTTAGGTTTTCGAATTTAGGG
*
23853247 TTTAGGTTTTTGAATTTAGGG
1 TTTAGGTTTTCGAATTTAGGG
23853268 TTTGAGGTTT
1 TTT-AGGTTT
23853278 GGTGTTTTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.13, C:0.02, G:0.31, T:0.54
Consensus pattern (21 bp):
TTTAGGTTTTCGAATTTAGGG
Found at i:23853339 original size:54 final size:58
Alignment explanation
Indices: 23853261--23853398 Score: 153
Period size: 54 Copynumber: 2.4 Consensus size: 58
23853251 GGTTTTTGAA
* *
23853261 TTTAGGG-TTTGAGGTTTG-GTGTTTTGGTTTTAGGATTT-A-ATTTT-GAAATTAG-T
1 TTTAGGGTTTTAAGGTTTGAG-GTTTTGATTTTAGGATTTAATATTTTAGAAATTAGAT
* *
23853314 TTTAGGGTTTTAAGGTTTGAGGTTTTGATTTTAGGATTTAGATATTTTAGGAATTTGAT
1 TTTAGGGTTTTAAGGTTTGAGGTTTTGATTTTAGGATTTA-ATATTTTAGAAATTAGAT
* *
23853373 TTTAAGGTTTTGAGGGTTTGAGGTTT
1 TTTAGGGTTTT-AAGGTTTGAGGTTT
23853399 CATTTTTAAG
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
53 7 0.10
54 27 0.38
55 1 0.01
56 1 0.01
57 5 0.07
58 6 0.08
59 11 0.15
60 13 0.18
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.51
Consensus pattern (58 bp):
TTTAGGGTTTTAAGGTTTGAGGTTTTGATTTTAGGATTTAATATTTTAGAAATTAGAT
Found at i:23853460 original size:15 final size:16
Alignment explanation
Indices: 23853440--23853473 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23853430 ATTTTAGGAT
23853440 TTTGGA-GGTTTAAGG
1 TTTGGAGGGTTTAAGG
*
23853455 TTTGGAGGGTTTAGGG
1 TTTGGAGGGTTTAAGG
23853471 TTT
1 TTT
23853474 TGTCTTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (16 bp):
TTTGGAGGGTTTAAGG
Found at i:23853603 original size:3 final size:3
Alignment explanation
Indices: 23853586--23853641 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
23853576 ATTTTAGGAT
*
23853586 TTA TT- TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23853633 TTA TTA TTA
1 TTA TTA TTA
23853642 ATTTTTTAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:23862452 original size:9 final size:9
Alignment explanation
Indices: 23862438--23862464 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
23862428 AAATGAATGG
23862438 GGCTGTGAA
1 GGCTGTGAA
23862447 GGCTGTGAA
1 GGCTGTGAA
23862456 GGCTGTGAA
1 GGCTGTGAA
23862465 CAAGAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.44, T:0.22
Consensus pattern (9 bp):
GGCTGTGAA
Found at i:23863938 original size:97 final size:97
Alignment explanation
Indices: 23863814--23864149 Score: 397
Period size: 97 Copynumber: 3.5 Consensus size: 97
23863804 GTTTCGAGAA
* * * *
23863814 AAGATGATATTTTAAAGTTATTGAGCCTTTGTTTTGAGAAGCTTTACCAAGATGAGAGTTTTAAA
1 AAGATGATATTTTAAAGTTATTGAGCCTTTGCTTAGAGAAGCTTTTCCAAGATGAGAATTTTAAA
*
23863879 GTTGTTGAGCCTCTACTTAGAGGAGCTTTTCC
66 GTTGTTGAGCCTCTACTAAGAGGAGCTTTTCC
* * * *
23863911 AAGATGATATTTTAAAATTATTTAGCCTTTGCTTAGAGGAGTTTTTCCAAGATGAGAATTTTAAA
1 AAGATGATATTTTAAAGTTATTGAGCCTTTGCTTAGAGAAGCTTTTCCAAGATGAGAATTTTAAA
* * * *
23863976 GTTGTTGAACCTCTACTGAGAGAAGCTTTTTC
66 GTTGTTGAGCCTCTACTAAGAGGAGCTTTTCC
* * * * * *
23864008 AAGATTA-ATTTTAAAGTTGTTGAGCCTTTACTGAGAGAAGCTTTTTCAAGATGA-ATTTTTAAA
1 AAGATGATATTTTAAAGTTATTGAGCCTTTGCTTAGAGAAGCTTTTCCAAGATGAGAATTTTAAA
* * *
23864071 GTTGTTGAGTCTCTGCTAAGAGGAGCTTTCCC
66 GTTGTTGAGCCTCTACTAAGAGGAGCTTTTCC
* * * * *
23864103 AAGATGATGAGTTTTAAAGTTGTTGAACCTCTGATTAGAGGAGCTTT
1 AAGATGAT-A-TTTTAAAGTTATTGAGCCTTTGCTTAGAGAAGCTTT
23864150 CTAAATTAAA
Statistics
Matches: 200, Mismatches: 36, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
95 39 0.19
96 39 0.19
97 92 0.46
98 30 0.15
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (97 bp):
AAGATGATATTTTAAAGTTATTGAGCCTTTGCTTAGAGAAGCTTTTCCAAGATGAGAATTTTAAA
GTTGTTGAGCCTCTACTAAGAGGAGCTTTTCC
Found at i:23863946 original size:48 final size:48
Alignment explanation
Indices: 23863814--23864149 Score: 343
Period size: 48 Copynumber: 6.9 Consensus size: 48
23863804 GTTTCGAGAA
* * * * * *
23863814 AAGATGATATTTTAAAGTTATTGAGCCTTTGTTTTGAGAAGCTTTACC
1 AAGATGATATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTCC
* *
23863862 AAGATGAGAGTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTCC
1 AAGATGATA-TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTCC
* * * * *
23863911 AAGATGATATTTTAAAATTATTTAGCCTTTGCTTAGAGGAGTTTTTCC
1 AAGATGATATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTCC
* * * * * *
23863959 AAGATGAGAATTTTAAAGTTGTTGAACCTCTACTGAGAGAAGCTTTTTC
1 AAGATGA-TATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTCC
* * * * * *
23864008 AAGATTA-ATTTTAAAGTTGTTGAGCCTTTACTGAGAGAAGCTTTTTC
1 AAGATGATATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTCC
* * *
23864055 AAGATGA-ATTTTTAAAGTTGTTGAGTCTCTGCTAAGAGGAGCTTTCCC
1 AAGATGATA-TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTCC
* *
23864103 AAGATGATGAGTTTTAAAGTTGTTGAACCTCTGATTAGAGGAGCTTT
1 AAGATGAT-A-TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTT
23864150 CTAAATTAAA
Statistics
Matches: 241, Mismatches: 42, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
47 45 0.19
48 87 0.36
49 76 0.32
50 33 0.14
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (48 bp):
AAGATGATATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTCC
Found at i:23864093 original size:144 final size:147
Alignment explanation
Indices: 23863849--23864134 Score: 391
Period size: 144 Copynumber: 2.0 Consensus size: 147
23863839 CCTTTGTTTT
* *
23863849 GAGAAGCTTTACCAAGATGAGAGTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTCCAAG
1 GAGAAGCTTTACCAAGATGAGAGTTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTCCAAG
* * * * *
23863914 ATGATATTTTAAAATTATTTAGCCTTTGCTTAGAGGAGTTTTTCCAAGATGA-GAATTTTAAAGT
66 ATGATATTTTAAAATTATTGAGCCTCTGCTAAGAGGAGCTTTCCCAAGATGATGAATTTTAAAGT
23863978 TGTTGAACCTCTACTGA
131 TGTTGAACCTCTACTGA
** * * *
23863995 GAGAAGCTTTTTCAAGATTA-A-TTTTAAAGTTGTTGAGCCTTTACTGAGAGAAGCTTTTTCAAG
1 GAGAAGCTTTACCAAGATGAGAGTTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTCCAAG
* * * *
23864058 ATGA-ATTTTTAAAGTTGTTGAGTCTCTGCTAAGAGGAGCTTTCCCAAGATGATGAGTTTTAAAG
66 ATGATA-TTTTAAAATTATTGAGCCTCTGCTAAGAGGAGCTTTCCCAAGATGATGAATTTTAAAG
23864122 TTGTTGAACCTCT
130 TTGTTGAACCTCT
23864135 GATTAGAGGA
Statistics
Matches: 122, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
143 1 0.01
144 80 0.66
145 24 0.20
146 17 0.14
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (147 bp):
GAGAAGCTTTACCAAGATGAGAGTTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTCCAAG
ATGATATTTTAAAATTATTGAGCCTCTGCTAAGAGGAGCTTTCCCAAGATGATGAATTTTAAAGT
TGTTGAACCTCTACTGA
Found at i:23865649 original size:208 final size:202
Alignment explanation
Indices: 23865280--23865649 Score: 446
Period size: 208 Copynumber: 1.8 Consensus size: 202
23865270 TAATACAAAA
* *
23865280 TAATAAAAAATAAGAAAAAAAATTTTATCTGACGATGAGATTCAAAAGTACTCCGAGTAGTGATA
1 TAATAAAAAATAAGAAAAAAAATTTTATCCGACGATGAGATTCAAAAGTACTCCGAGTAGAGATA
* * *
23865345 CCTACGAAATCTCTAGGTGAGAAGATTTTTTTTAAATACTAACAGTGATTAGAGTATTTATAAAA
66 CCTAAGAAATCCCTAGGTGAGAAGATTTTTTTTAAATACTAACAGTGATTAGAATATTTATAAAA
* * *
23865410 AGTTTTCAATACAATAAAATTTTTCTTTTCTTTAAGAAAATAATAAAAAATAATTAATAAATTAA
131 AGTCTTCAATACAATAAAATATTCCTTTTCTTTAAGAAAATAATAAAAAATAATTAATAAATTAA
23865475 GAATAAG
196 GAATAAG
* * *
23865482 TAAT-AAAAATGAGAAAAAAAAATTTTATCCGATGAT-AGGATTCTAAAAGTATTCCGAGTAGAG
1 TAATAAAAAATAAG-AAAAAAAATTTTATCCGACGATGA-GATTC-AAAAGTACTCCGAGT--AG
* * *
23865545 AGAGTTACTTTAAGAAATCCCTAGGTGAGAAGA-TTTTTTTAAATATTACCAGTGTATT-GAAAT
61 AGA--TAC-CTAAGAAATCCCTAGGTGAGAAGATTTTTTTTAAATACTAACAGTG-ATTAG-AAT
* *
23865608 ATTTATAGGAAA-TCTTCAATATAATAAAA-ATTCCATTTTCTT
121 ATTTATA-AAAAGTCTTCAATACAATAAAATATTCC-TTTTCTT
23865650 CAATGTTTTA
Statistics
Matches: 140, Mismatches: 16, Indels: 18
0.80 0.09 0.10
Matches are distributed among these distances:
201 9 0.06
202 29 0.21
203 14 0.10
205 4 0.03
207 26 0.19
208 55 0.39
209 3 0.02
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (202 bp):
TAATAAAAAATAAGAAAAAAAATTTTATCCGACGATGAGATTCAAAAGTACTCCGAGTAGAGATA
CCTAAGAAATCCCTAGGTGAGAAGATTTTTTTTAAATACTAACAGTGATTAGAATATTTATAAAA
AGTCTTCAATACAATAAAATATTCCTTTTCTTTAAGAAAATAATAAAAAATAATTAATAAATTAA
GAATAAG
Found at i:23865680 original size:10 final size:10
Alignment explanation
Indices: 23865659--23865698 Score: 73
Period size: 10 Copynumber: 4.1 Consensus size: 10
23865649 TCAATGTTTT
23865659 AATTAA-AAA
1 AATTAATAAA
23865668 AATTAATAAA
1 AATTAATAAA
23865678 AATTAATAAA
1 AATTAATAAA
23865688 AATTAATAAA
1 AATTAATAAA
23865698 A
1 A
23865699 TTTCTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 6 0.20
10 24 0.80
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AATTAATAAA
Found at i:23866433 original size:53 final size:53
Alignment explanation
Indices: 23866325--23866447 Score: 138
Period size: 53 Copynumber: 2.3 Consensus size: 53
23866315 TTGGTGTCAA
* * * * * * * *
23866325 CTAAACTGGACTTTAAACTTCAATGGTGCTAAATAATTTGGGTTTATGTGTCAG
1 CTAAACTGGGC-TTAAACCTCAATGATGCCAAATAATTCGGGCTTACGTGCCAG
* *
23866379 CTAAACTGGGCTTAAACCTCATTGATGCCAAATCATTCGGGCTTACGTGCCAG
1 CTAAACTGGGCTTAAACCTCAATGATGCCAAATAATTCGGGCTTACGTGCCAG
*
23866432 CTAAATTGGGCTTAAA
1 CTAAACTGGGCTTAAA
23866448 TCTTCTTTGA
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
53 48 0.83
54 10 0.17
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (53 bp):
CTAAACTGGGCTTAAACCTCAATGATGCCAAATAATTCGGGCTTACGTGCCAG
Found at i:23866523 original size:87 final size:86
Alignment explanation
Indices: 23866374--23866534 Score: 189
Period size: 87 Copynumber: 1.9 Consensus size: 86
23866364 GGGTTTATGT
* * * * * *
23866374 GTCAGCTAAACTGGGCTTAAACCTCATTGATGCCAAATCATTCGGGCTTACGTGCCAGCTAAATT
1 GTCAGCTAAACTGGACTTAAACCTCATTGATGCCAAATAATTCGAGCTTACGTACCAACTAAACT
*
23866439 GGGCTTAAATCTTCTTTGATG
66 AGGCTTAAATCTTCTTTGATG
* * * * *
23866460 GTCAGTTAAACTGGACTTAAGACTTCATTGATGCTAGATAA-TCTGAGCTTATGTACCAACTAAA
1 GTCAGCTAAACTGGACTTAA-ACCTCATTGATGCCAAATAATTC-GAGCTTACGTACCAACTAAA
23866524 CTAGGCTTAAA
64 CTAGGCTTAAA
23866535 CCTCATTGAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
86 20 0.33
87 41 0.67
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (86 bp):
GTCAGCTAAACTGGACTTAAACCTCATTGATGCCAAATAATTCGAGCTTACGTACCAACTAAACT
AGGCTTAAATCTTCTTTGATG
Found at i:23866586 original size:140 final size:140
Alignment explanation
Indices: 23866322--23866633 Score: 430
Period size: 140 Copynumber: 2.2 Consensus size: 140
23866312 TCATTGGTGT
* * * * * ** *
23866322 CAACTAAACTGGACTTTAA-ACTTCAATGGTGCTAAATAATTTGGGTTTATGTGTCAGCTAAACT
1 CAACTAAACTGGAC-TTAAGACTTCATTGATGCTAAATAATCTGAGCTTATGTACCAACTAAACT
* * *
23866386 GGGCTTAAACCTCATTGATGCCAAATCATTCGGGCTTACGTGCCAGCTAAATTGGGCTTAAATCT
65 AGGCTTAAACCTCATTGATGCCAAATCATTCGGGCTTACGTGCCAGCTAAACTGGACTTAAATCT
* *
23866451 TCTTTGATGGT
130 TCATTGATGGC
** *
23866462 CAGTTAAACTGGACTTAAGACTTCATTGATGCTAGATAATCTGAGCTTATGTACCAACTAAACTA
1 CAACTAAACTGGACTTAAGACTTCATTGATGCTAAATAATCTGAGCTTATGTACCAACTAAACTA
* *
23866527 GGCTTAAACCTCATTGATGTCAAATCATTTGGGCTTACGTGCCAGCTAAACTGGACTTAAATCTT
66 GGCTTAAACCTCATTGATGCCAAATCATTCGGGCTTACGTGCCAGCTAAACTGGACTTAAATCTT
23866592 CATTGATGGC
131 CATTGATGGC
23866602 CAACTAAACTAGG-CTTAAGACTTCATTGATGC
1 CAACTAAACT-GGACTTAAGACTTCATTGATGC
23866634 CAGTTAAATT
Statistics
Matches: 150, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
139 4 0.03
140 144 0.96
141 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (140 bp):
CAACTAAACTGGACTTAAGACTTCATTGATGCTAAATAATCTGAGCTTATGTACCAACTAAACTA
GGCTTAAACCTCATTGATGCCAAATCATTCGGGCTTACGTGCCAGCTAAACTGGACTTAAATCTT
CATTGATGGC
Found at i:23866609 original size:33 final size:33
Alignment explanation
Indices: 23866567--23866632 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
23866557 GGGCTTACGT
*
23866567 GCCAGCTAAACT-GGACTTAA-ATCTTCATTGATG
1 GCCAACTAAACTAGG-CTTAAGA-CTTCATTGATG
23866600 GCCAACTAAACTAGGCTTAAGACTTCATTGATG
1 GCCAACTAAACTAGGCTTAAGACTTCATTGATG
23866633 CCAGTTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (33 bp):
GCCAACTAAACTAGGCTTAAGACTTCATTGATG
Found at i:23867541 original size:23 final size:23
Alignment explanation
Indices: 23867510--23867574 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
23867500 CCACCCATTC
23867510 ATTTTTTTTT-CTTTCTTTTTTT
1 ATTTTTTTTTCCTTTCTTTTTTT
*
23867532 ATTTTTTTTTCCTTTCATTTTTT
1 ATTTTTTTTTCCTTTCTTTTTTT
* *
23867555 ATTTTTCTTTTGCATTCTTT
1 ATTTTT-TTTTCCTTTCTTT
23867575 CACTGAATGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.27
23 17 0.46
24 10 0.27
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.78
Consensus pattern (23 bp):
ATTTTTTTTTCCTTTCTTTTTTT
Found at i:23870347 original size:4 final size:4
Alignment explanation
Indices: 23870321--23870390 Score: 61
Period size: 4 Copynumber: 17.5 Consensus size: 4
23870311 TGTATTATAT
* * * * *
23870321 TGAA TGAA T-ATA TAAA TGGA TGAA TGAA TGAA TGAT TGCA TAAA TGAA
1 TGAA TGAA TGA-A TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA
* *
23870369 TGAA TGAA TCAA TGAG TGAA TG
1 TGAA TGAA TGAA TGAA TGAA TG
23870391 CACAACTAAC
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
3 1 0.02
4 49 0.96
5 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.23, T:0.29
Consensus pattern (4 bp):
TGAA
Found at i:23870353 original size:28 final size:28
Alignment explanation
Indices: 23870321--23870383 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
23870311 TGTATTATAT
* *
23870321 TGAATGAATATATAAATGGATGAATGAA
1 TGAATGAATACATAAATGAATGAATGAA
* *
23870349 TGAATGATTGCATAAATGAATGAATGAA
1 TGAATGAATACATAAATGAATGAATGAA
*
23870377 TCAATGA
1 TGAATGA
23870384 GTGAATGCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.48, C:0.03, G:0.21, T:0.29
Consensus pattern (28 bp):
TGAATGAATACATAAATGAATGAATGAA
Found at i:23870388 original size:16 final size:16
Alignment explanation
Indices: 23870321--23870390 Score: 68
Period size: 16 Copynumber: 4.4 Consensus size: 16
23870311 TGTATTATAT
* *
23870321 TGAATGAATATATAAA
1 TGAATGAATAAATGAA
* *
23870337 TGGATGAATGAATGAA
1 TGAATGAATAAATGAA
* *
23870353 TGATTGCATAAATGAA
1 TGAATGAATAAATGAA
* *
23870369 TGAATGAATCAATGAG
1 TGAATGAATAAATGAA
23870385 TGAATG
1 TGAATG
23870391 CACAACTAAC
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.46, C:0.03, G:0.23, T:0.29
Consensus pattern (16 bp):
TGAATGAATAAATGAA
Found at i:23872060 original size:20 final size:19
Alignment explanation
Indices: 23872019--23872061 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
23872009 ATGATTGACC
*
23872019 TAAAATAAATACCACATCT
1 TAAAATAAATACCACATAT
23872038 TAAAATATAATACACACA-AT
1 TAAAATA-AATAC-CACATAT
23872058 TAAA
1 TAAA
23872062 GAATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 10 0.48
21 4 0.19
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (19 bp):
TAAAATAAATACCACATAT
Found at i:23874003 original size:30 final size:30
Alignment explanation
Indices: 23873949--23874234 Score: 167
Period size: 29 Copynumber: 10.0 Consensus size: 30
23873939 TCAGAATTAG
* * *
23873949 TTTTAGGGTTTTGA-GGTTTGAGGTTTTGA
1 TTTTAAGGTTTGGAGGGTTTAAGGTTTTGA
23873978 TTTTAAGGTTTGGAGGGTTTAAGGTTTTGA
1 TTTTAAGGTTTGGAGGGTTTAAGGTTTTGA
*
23874008 TTTTAAGG-TTGGAGGG---AA---TTAG-
1 TTTTAAGGTTTGGAGGGTTTAAGGTTTTGA
* ** *
23874030 TTTTAGGGTTTAAAGGG-CT-AGAGTTTTGA
1 TTTTAAGGTTTGGAGGGTTTAAG-GTTTTGA
*
23874059 TTTTAAGGTTTGGAGGATTTAAGGTTTTGA
1 TTTTAAGGTTTGGAGGGTTTAAGGTTTTGA
* * * *
23874089 TTTT-AGGATTT-AATGTTTTAAGGATTTGA
1 TTTTAAGG-TTTGGAGGGTTTAAGGTTTTGA
** *
23874118 TTTTAAGGTTTTAAGGGTTTAAGG-TTTCA
1 TTTTAAGGTTTGGAGGGTTTAAGGTTTTGA
* *** * *
23874147 TTCTTAGGGTTCAAAGGGTTT-AGGGTTTAA
1 TT-TTAAGGTTTGGAGGGTTTAAGGTTTTGA
* *
23874177 TTTT-AGGATTTTGGA-GGTTT-AGGGTTTAA
1 TTTTAAGG--TTTGGAGGGTTTAAGGTTTTGA
* *
23874206 TTTTAGGGTTTGGAGGGTTTAGGGTTTTG
1 TTTTAAGGTTTGGAGGGTTTAAGGTTTTG
23874235 TCTTTAATGT
Statistics
Matches: 204, Mismatches: 32, Indels: 41
0.74 0.12 0.15
Matches are distributed among these distances:
22 7 0.03
23 9 0.04
24 1 0.00
26 2 0.01
28 11 0.05
29 91 0.45
30 81 0.40
31 2 0.01
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.46
Consensus pattern (30 bp):
TTTTAAGGTTTGGAGGGTTTAAGGTTTTGA
Found at i:23874056 original size:81 final size:81
Alignment explanation
Indices: 23873942--23874093 Score: 243
Period size: 81 Copynumber: 1.9 Consensus size: 81
23873932 TTTAATTTCA
** * * *
23873942 GAATTAGTTTTAGGGTTTTGAGGTTTGAGGTTTTGATTTTAAGGTTTGGAGGGTTTAAGGTTTTG
1 GAATTAGTTTTAGGGTTTAAAGGCTAGAGGTTTTGATTTTAAGGTTTGGAGGATTTAAGGTTTTG
23874007 ATTTTAAGGTTGGAGG
66 ATTTTAAGGTTGGAGG
23874023 GAATTAGTTTTAGGGTTTAAAGGGCTAGA-GTTTTGATTTTAAGGTTTGGAGGATTTAAGGTTTT
1 GAATTAGTTTTAGGGTTTAAA-GGCTAGAGGTTTTGATTTTAAGGTTTGGAGGATTTAAGGTTTT
23874087 GATTTTA
65 GATTTTA
23874094 GGATTTAATG
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
81 60 0.92
82 5 0.08
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.45
Consensus pattern (81 bp):
GAATTAGTTTTAGGGTTTAAAGGCTAGAGGTTTTGATTTTAAGGTTTGGAGGATTTAAGGTTTTG
ATTTTAAGGTTGGAGG
Found at i:23874131 original size:8 final size:8
Alignment explanation
Indices: 23874059--23874144 Score: 56
Period size: 8 Copynumber: 11.4 Consensus size: 8
23874049 AGAGTTTTGA
23874059 TTTTAAGG
1 TTTTAAGG
**
23874067 TTTGGAGG
1 TTTTAAGG
*
23874075 ATTTAAGG
1 TTTTAAGG
*
23874083 TTTT--GA
1 TTTTAAGG
23874089 TTTT-AGG
1 TTTTAAGG
* *
23874096 ATTTAATG
1 TTTTAAGG
23874104 TTTTAAGG
1 TTTTAAGG
* *
23874112 ATTT--GA
1 TTTTAAGG
23874118 TTTTAAGG
1 TTTTAAGG
23874126 TTTTAAGG
1 TTTTAAGG
*
23874134 GTTTAAGG
1 TTTTAAGG
23874142 TTT
1 TTT
23874145 CATTCTTAGG
Statistics
Matches: 56, Mismatches: 18, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
6 9 0.16
7 4 0.07
8 43 0.77
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (8 bp):
TTTTAAGG
Found at i:23874183 original size:13 final size:13
Alignment explanation
Indices: 23874165--23874216 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
23874155 GTTCAAAGGG
23874165 TTTAGGGTTTAAT
1 TTTAGGGTTTAAT
* **
23874178 TTTAGGATTTTGGAGG
1 TTTAGG-GTTT--AAT
23874194 TTTAGGGTTTAAT
1 TTTAGGGTTTAAT
23874207 TTTAGGGTTT
1 TTTAGGGTTT
23874217 GGAGGGTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
13 17 0.57
14 3 0.10
15 3 0.10
16 7 0.23
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (13 bp):
TTTAGGGTTTAAT
Found at i:23874367 original size:3 final size:3
Alignment explanation
Indices: 23874345--23874384 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
23874335 ATTTTAAGAT
*
23874345 TTA TT- TTA CTA TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23874385 AAAAAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23879529 original size:19 final size:19
Alignment explanation
Indices: 23879481--23879531 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
23879471 TATGAAAATT
** *
23879481 TTTCTTTTCGTTTTTTTGG
1 TTTCTTTTTATTTGTTTGG
*
23879500 TTTGTTTTTTATTTGTTTGG
1 TTT-CTTTTTATTTGTTTGG
23879520 TTTCTTTTTATT
1 TTTCTTTTTATT
23879532 GAAAGTGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.04, C:0.06, G:0.14, T:0.76
Consensus pattern (19 bp):
TTTCTTTTTATTTGTTTGG
Found at i:23883124 original size:22 final size:22
Alignment explanation
Indices: 23883078--23883127 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
23883068 ATTTACATAA
** * *
23883078 ATTATTAAAAATTATTAGTTTT
1 ATTATTAAAAATTAAAAATTAT
23883100 ATTATTAAAAATTAAAAATTAT
1 ATTATTAAAAATTAAAAATTAT
23883122 ATTATT
1 ATTATT
23883128 TTAATAAAAA
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:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTATTAAAAATTAAAAATTAT
Found at i:23884837 original size:4 final size:4
Alignment explanation
Indices: 23884828--23884852 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
23884818 TCAAACCTAA
23884828 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
23884853 ATTATTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:23884856 original size:3 final size:3
Alignment explanation
Indices: 23884848--23884873 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23884838 ATTTATTTAT
23884848 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
23884874 TGGCTTTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23890325 original size:21 final size:23
Alignment explanation
Indices: 23890299--23890392 Score: 76
Period size: 21 Copynumber: 4.3 Consensus size: 23
23890289 AAGATGGGTG
23890299 AATGAATG-AAAGAAGA-AAAAA
1 AATGAATGAAAAGAAGAGAAAAA
*
23890320 AATGAATGAAAAACAATGA-AAAAA
1 AATGAATG-AAAAGAA-GAGAAAAA
** *
23890344 GAAAAAATG-GAA-AAGAGAAAAA
1 -AATGAATGAAAAGAAGAGAAAAA
23890366 AA--AATGAAAAGAAGAGAAAAA
1 AATGAATGAAAAGAAGAGAAAAA
23890387 AATGAA
1 AATGAA
23890393 AAAAATGAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
19 4 0.07
20 2 0.03
21 24 0.41
22 7 0.12
23 9 0.15
24 7 0.12
25 6 0.10
ACGTcount: A:0.72, C:0.01, G:0.18, T:0.09
Consensus pattern (23 bp):
AATGAATGAAAAGAAGAGAAAAA
Found at i:23890357 original size:15 final size:16
Alignment explanation
Indices: 23890303--23890412 Score: 61
Period size: 19 Copynumber: 6.7 Consensus size: 16
23890293 TGGGTGAATG
*
23890303 AATGAAAGAAGAAAAAA
1 AATGAAA-AAGAGAAAA
*
23890320 AATG--AATGA-AAAA
1 AATGAAAAAGAGAAAA
23890333 CAATGAAAAA-AGAAAA
1 -AATGAAAAAGAGAAAA
*
23890349 AATGGAAAAGAGAAAAAAA
1 AAT-GAAAA-AG-AGAAAA
23890368 AATGAAAAGAAGAGAAAAA
1 AATG-AAA-AAGAG-AAAA
*
23890387 AATGAAAAAAATG-AAA
1 AATGAAAAAGA-GAAAA
23890403 AAT-AAAAAGA
1 AATGAAAAAGA
23890413 AGAGAAAAGA
Statistics
Matches: 75, Mismatches: 6, Indels: 26
0.70 0.06 0.24
Matches are distributed among these distances:
13 4 0.05
14 7 0.09
15 11 0.15
16 17 0.23
17 8 0.11
18 6 0.08
19 21 0.28
20 1 0.01
ACGTcount: A:0.75, C:0.01, G:0.16, T:0.08
Consensus pattern (16 bp):
AATGAAAAAGAGAAAA
Found at i:23890366 original size:18 final size:20
Alignment explanation
Indices: 23890345--23890424 Score: 71
Period size: 19 Copynumber: 4.1 Consensus size: 20
23890335 ATGAAAAAAG
23890345 AAAAAATGGAAAAG-AGAA-A
1 AAAAAAT-GAAAAGAAGAAGA
23890364 AAAAAATGAAAAGAAG-AGA
1 AAAAAATGAAAAGAAGAAGA
*
23890383 AAAAAATGAAAAAAATGAA-A
1 AAAAAATGAAAAGAA-GAAGA
* *
23890403 AATAAAAAGAAGAGAA-AAGA
1 AA-AAAATGAAAAGAAGAAGA
23890423 AA
1 AA
23890425 GACTCAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
18 7 0.14
19 26 0.51
20 7 0.14
21 11 0.22
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.06
Consensus pattern (20 bp):
AAAAAATGAAAAGAAGAAGA
Found at i:23891522 original size:21 final size:21
Alignment explanation
Indices: 23891478--23891555 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
23891468 GAATCTTTTG
* *
23891478 ATAAGAATTTTTGAGTTCTCAA
1 ATAAGAATCTTTGAATT-TCAA
**
23891500 ATGCGAATCTTTGAATTTCAA
1 ATAAGAATCTTTGAATTTCAA
* *
23891521 ATAAAAATATTTGAATTTCAA
1 ATAAGAATCTTTGAATTTCAA
*
23891542 ATATGAATCTTTGA
1 ATAAGAATCTTTGA
23891556 GATGTGAAAC
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 32 0.71
22 13 0.29
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (21 bp):
ATAAGAATCTTTGAATTTCAA
Found at i:23891721 original size:16 final size:16
Alignment explanation
Indices: 23891697--23891734 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
23891687 ATGCGAATTT
*
23891697 TGAAATCTTGCATATC
1 TGAAATCTTGCACATC
*
23891713 TGAATTCTTGCACATC
1 TGAAATCTTGCACATC
23891729 TGAAAT
1 TGAAAT
23891735 TTTATGAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (16 bp):
TGAAATCTTGCACATC
Found at i:23891981 original size:42 final size:42
Alignment explanation
Indices: 23891922--23892188 Score: 315
Period size: 42 Copynumber: 6.2 Consensus size: 42
23891912 GTCCAGGAGT
* *
23891922 AATTTTTTTTTTCAAAGTTCTTTTACCTCTATTTAGAGAAGC
1 AATTTATTTTTTCAAAGTTCTGTTACCTCTATTTAGAGAAGC
23891964 AATTTATTTTTTCAAAGTTCTGTTACCTCTATTTAGAGTATAGAGGAGC
1 AATTTATTTTTTCAAAGTTCTGTTACCTCTATTT--AG---AGA--AGC
* * *
23892013 AATTTATTTTTTCAAAAGTTTTGTTGCCTCTATTTAGAGGAGC
1 AATTTATTTTTTC-AAAGTTCTGTTACCTCTATTTAGAGAAGC
*
23892056 AATTTATTTTTTCAAAGTTCTGTTACCTCTATTTAGAGGAGC
1 AATTTATTTTTTCAAAGTTCTGTTACCTCTATTTAGAGAAGC
* * * *
23892098 AATTTATTTTTTCAAAATTGTGTTGCCTCTATTTAGAGGAA-T
1 AATTTATTTTTTCAAAGTTCTGTTACCTCTATTTAGA-GAAGC
* *
23892140 AATTTA-TTCTTCAAAGTTGTGTTACCTCTATTTAGAGGAA-C
1 AATTTATTTTTTCAAAGTTCTGTTACCTCTATTTAGA-GAAGC
23892181 AATTTATT
1 AATTTATT
23892189 CTTCAAATTT
Statistics
Matches: 199, Mismatches: 16, Indels: 20
0.85 0.07 0.09
Matches are distributed among these distances:
41 37 0.19
42 100 0.50
43 18 0.09
44 2 0.01
45 2 0.01
47 3 0.02
48 2 0.01
49 16 0.08
50 19 0.10
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (42 bp):
AATTTATTTTTTCAAAGTTCTGTTACCTCTATTTAGAGAAGC
Found at i:23892072 original size:92 final size:91
Alignment explanation
Indices: 23891916--23892176 Score: 353
Period size: 92 Copynumber: 3.0 Consensus size: 91
23891906 ATGATTGTCC
* * * *
23891916 AGGAGTAATTTTTTTTTTC-AAAGTTCTT-TTACCTCTATTTAGAGAAGCAATTTATTTTTTCAA
1 AGGAGCAATTTATTTTTTCAAAAGTT-TTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAA
23891979 AGTTCTGTTACCTCTATTTAGAGTATAG
65 AGTTCTGTTACCTCTATTTAGAGT-TAG
23892007 AGGAGCAATTTATTTTTTCAAAAGTTTTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAA
1 AGGAGCAATTTATTTTTTCAAAAGTTTTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAA
23892072 GTTCTGTTACCTCTA--T----TTAG
66 GTTCTGTTACCTCTATTTAGAGTTAG
* ** *
23892092 AGGAGCAATTTATTTTTTCAAAA-TTGTGTTGCCTCTATTTAGAGGAATAATTTA-TTCTTCAAA
1 AGGAGCAATTTATTTTTTCAAAAGTTTTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAA
*
23892155 GTTGTGTTACCTCTATTTAGAG
66 GTTCTGTTACCTCTATTTAGAG
23892177 GAACAATTTA
Statistics
Matches: 153, Mismatches: 9, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
83 22 0.14
84 28 0.18
85 27 0.18
86 1 0.01
90 1 0.01
91 19 0.12
92 55 0.36
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (91 bp):
AGGAGCAATTTATTTTTTCAAAAGTTTTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAA
GTTCTGTTACCTCTATTTAGAGTTAG
Found at i:23892184 original size:83 final size:85
Alignment explanation
Indices: 23892004--23892188 Score: 302
Period size: 83 Copynumber: 2.2 Consensus size: 85
23891994 ATTTAGAGTA
* * *
23892004 TAGAGGAGCAATTTATTTTTTCAAAAGTTTTGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTC
1 TAGAGGAGCAATTTATTTTTTCAAAAGTTGTGTTGCCTCTATTTAGAGGAACAATTTATTTCTTC
23892069 AAAGTTCTGTTACCTCTATT
66 AAAGTTCTGTTACCTCTATT
*
23892089 TAGAGGAGCAATTTATTTTTTCAAAA-TTGTGTTGCCTCTATTTAGAGGAATAATTTA-TTCTTC
1 TAGAGGAGCAATTTATTTTTTCAAAAGTTGTGTTGCCTCTATTTAGAGGAACAATTTATTTCTTC
*
23892152 AAAGTTGTGTTACCTCTATT
66 AAAGTTCTGTTACCTCTATT
*
23892172 TAGAGGAACAATTTATT
1 TAGAGGAGCAATTTATT
23892189 CTTCAAATTT
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
83 40 0.43
84 28 0.30
85 26 0.28
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (85 bp):
TAGAGGAGCAATTTATTTTTTCAAAAGTTGTGTTGCCTCTATTTAGAGGAACAATTTATTTCTTC
AAAGTTCTGTTACCTCTATT
Found at i:23893488 original size:26 final size:26
Alignment explanation
Indices: 23893459--23893522 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
23893449 AATGATGAAA
*
23893459 TTTATAGAAATTTCAAATGATAAATT
1 TTTATAGAAATTTCAAATGACAAATT
* * **
23893485 TTTATAGAATTTTTAGGTGACAAATT
1 TTTATAGAAATTTCAAATGACAAATT
23893511 TTTATA-AAATTT
1 TTTATAGAAATTT
23893523 TTAGGTGAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 5 0.16
26 27 0.84
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (26 bp):
TTTATAGAAATTTCAAATGACAAATT
Found at i:23893512 original size:15 final size:14
Alignment explanation
Indices: 23893492--23893538 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
23893482 ATTTTTATAG
23893492 AATTTTTAGGTGACA
1 AATTTTTAGGTGA-A
23893507 AATTTTTA--T-AA
1 AATTTTTAGGTGAA
23893518 AATTTTTAGGTGAGA
1 AATTTTTAGGTGA-A
23893533 AATTTT
1 AATTTT
23893539 ATCTAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 9 0.32
12 1 0.04
13 2 0.07
14 1 0.04
15 15 0.54
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (14 bp):
AATTTTTAGGTGAA
Found at i:23893548 original size:26 final size:26
Alignment explanation
Indices: 23893480--23893538 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
23893470 TTCAAATGAT
*
23893480 AAATTTTTATAGAATTTTTAGGTGAC
1 AAATTTTTATAAAATTTTTAGGTGAC
*
23893506 AAATTTTTATAAAATTTTTAGGTGAG
1 AAATTTTTATAAAATTTTTAGGTGAC
23893532 AAATTTT
1 AAATTTT
23893539 ATCTAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (26 bp):
AAATTTTTATAAAATTTTTAGGTGAC
Found at i:23902187 original size:46 final size:46
Alignment explanation
Indices: 23902137--23902725 Score: 593
Period size: 46 Copynumber: 13.0 Consensus size: 46
23902127 TTAAAAACAG
*
23902137 ATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCTTTTC
1 ATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTC
23902183 ATGAG-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTC
1 ATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTC
* * *
23902228 ATGA-ATTTTTAAAATTGTTGAGCCTCTGCTGAGATGAG-CTTTTCC
1 ATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTT-C
* * * * * * *
23902273 AGATGAGATTTTTAAAATTGTTGAGCCTATACTAAGAGGAGCTTTTTT
1 --ATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTC
* *
23902321 ATGAG-ATTTTAAAGTTATTGAGCCTCTGTTGAGAGGAGCCTTTTC
1 ATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTC
* *
23902366 ATGA-AATTTTTAAAGTTGTTGAGCTTCTACTGAGAGGAG-CTTTTCC
1 ATGAGAA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTT-C
*
23902412 AAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTCC
1 ATGA-G-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTT-C
* * *
23902460 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGTTGAAAGGAG------C
1 --ATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTC
* * *
23902502 ----G-ATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTT
1 ATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTC
* * * *
23902543 AAGAGGATTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCCTTTTC
1 ATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTC
* * * * *
23902589 AAGAGAATTTTAAAGTCGTTGAGCCTCTACTGAGATGAGCTTTTTC
1 ATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTC
* * * * * *
23902635 AAGAGAATTTTAAAATCGTTGAGCCTTTACTGAAAGGAGCCTTTTC
1 ATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTC
* * * *
23902681 ATTAGATTTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCCTTTT
1 ATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTT
23902726 AAACTTTCAA
Statistics
Matches: 462, Mismatches: 56, Indels: 50
0.81 0.10 0.09
Matches are distributed among these distances:
35 31 0.07
36 1 0.00
42 1 0.00
44 5 0.01
45 116 0.25
46 196 0.42
47 4 0.01
48 98 0.21
49 7 0.02
50 3 0.01
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.37
Consensus pattern (46 bp):
ATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTC
Found at i:23902299 original size:48 final size:47
Alignment explanation
Indices: 23902134--23902501 Score: 434
Period size: 45 Copynumber: 7.9 Consensus size: 47
23902124 AATTTAAAAA
* *
23902134 CAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCTTTT
1 CAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGG-AGCTTTT
23902182 C--ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTT
1 CAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTT
* *
23902227 C--ATGA-ATTTTTAAAATTGTTGAGCCTCTGCTGAGATGAGCTTTT
1 CAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT
* * * *
23902271 CCAGATGAGATTTTTAAAATTGTTGAGCCTATACTAAGAGGAGCTTTT
1 -CAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT
** * *
23902319 -TTATGAGA-TTTTAAAGTTATTGAGCCTCTGTTGAGAGGAGCCTTTT
1 CAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTT
* * *
23902365 C--ATGAAATTTTTAAAGTTGTTGAGCTTCTACTGAGAGGAGCTTTT
1 CAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT
*
23902410 CCAAGATGA-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT
1 -C-AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT
* *
23902458 CCAGATGAGATTTTTAAAGTTGTTGAGCCTCTGTTGAAAGGAGC
1 -CAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
23902502 GATTTTAAAG
Statistics
Matches: 280, Mismatches: 26, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
44 7 0.03
45 107 0.38
46 46 0.16
47 10 0.04
48 106 0.38
49 4 0.01
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (47 bp):
CAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT
Found at i:23902543 original size:35 final size:35
Alignment explanation
Indices: 23902468--23902544 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
23902458 CCAGATGAGA
23902468 TTTTTAAAGTTGTTGAGCCTCTGTTGAAAGGAGCG
1 TTTTTAAAGTTGTTGAGCCTCTGTTGAAAGGAGCG
* * *
23902503 ATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCT
1 TTTTTAAAGTTGTTGAGCCTCTGTTGAAAGGAGCG
23902538 TTTTTAA
1 TTTTTAA
23902545 GAGGATTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.40
Consensus pattern (35 bp):
TTTTTAAAGTTGTTGAGCCTCTGTTGAAAGGAGCG
Found at i:23902970 original size:19 final size:20
Alignment explanation
Indices: 23902932--23902971 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
23902922 TATTATTTAA
* *
23902932 TTTTTTTTCTTTTTCTTTTC
1 TTTTTTTTCTTTCTCATTTC
23902952 TTTTTTTTC-TTCTCATTTC
1 TTTTTTTTCTTTCTCATTTC
23902971 T
1 T
23902972 GCGTTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTTTCTTTCTCATTTC
Found at i:23904326 original size:18 final size:18
Alignment explanation
Indices: 23904283--23904329 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
23904273 AATTTTCTTT
23904283 TTAA-TAATAAATAAAAA
1 TTAAGTAATAAATAAAAA
* *
23904300 TTGATTAATAAATTAAAAA
1 TTAAGTAATAAA-TAAAAA
23904319 -TAAGTAATAAA
1 TTAAGTAATAAA
23904330 AATAGGAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 3 0.12
18 16 0.64
19 6 0.24
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (18 bp):
TTAAGTAATAAATAAAAA
Found at i:23904878 original size:192 final size:192
Alignment explanation
Indices: 23904589--23904964 Score: 592
Period size: 192 Copynumber: 2.0 Consensus size: 192
23904579 CATGATATAA
* * * *
23904589 TTTCTTACGAAAAGTAAATTTAGATCTCCAAAGATGAGATTCTAAAAATATTTCGAGTAGAGATG
1 TTTCTTACGAAAAATAAATTGAGACCTCCAAAGATGAGATTCTAAAAATATTCCGAGTAGAGATG
* * *
23904654 CTTTAAGAAATCTTTAGGTGAGAAAAAGTTCTTTTAATATTACCAACGTACTGAAACATTTTAAG
66 CTTTAAGAAATCTCTAAGTAAGAAAAAGTTCTTTTAATATTACCAACGTACTGAAACATTTTAAG
**
23904719 AATCATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATATTTTTTTTAACATGACAT
131 AATCATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAAATTTTTTAACATGACAT
* *
23904781 TTTCTTACGAAAAATAAATTG-GAGCCTTCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGAT
1 TTTCTTACGAAAAATAAATTGAGA-CCTCCAAAGATGAGATTCTAAAAATATTCCGAGTAGAGAT
* * *
23904845 GCTTTAAGAAATCTCTAAGTAAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTAA
65 GCTTTAAGAAATCTCTAAGTAAGAAAAAGTTCTTTTAATATTACCAACGTACTGAAACATTTTAA
* *
23904910 GAATTATTTCAATAAAAATGTTTTAATTTATTTTTCTCGAGAATAAATTTTTTAA
130 GAATCATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAAATTTTTTAA
23904965 TAAATAAAAA
Statistics
Matches: 167, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
191 2 0.01
192 165 0.99
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (192 bp):
TTTCTTACGAAAAATAAATTGAGACCTCCAAAGATGAGATTCTAAAAATATTCCGAGTAGAGATG
CTTTAAGAAATCTCTAAGTAAGAAAAAGTTCTTTTAATATTACCAACGTACTGAAACATTTTAAG
AATCATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAAATTTTTTAACATGACAT
Found at i:23905838 original size:2 final size:2
Alignment explanation
Indices: 23905767--23905818 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
23905757 AGCCCAAATC
* * * * *
23905767 AT AT AT AT AT AT AT AT AT AT AT TT AT TT TT AT AT AT AT GT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23905809 AT -T AT AT AT A
1 AT AT AT AT AT A
23905819 AAATTAAATC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
AT
Found at i:23905940 original size:52 final size:51
Alignment explanation
Indices: 23905836--23905932 Score: 142
Period size: 50 Copynumber: 1.9 Consensus size: 51
23905826 ATCACATATA
23905836 TATAAAAATTAAAAATAAAATTTTTATTTTTAATTTTTATATATATACAAAT
1 TATAAAAATTAAAAAT-AAATTTTTATTTTTAATTTTTATATATATACAAAT
* * * *
23905888 TATAGAAATTATAAAT-AATTTTTCTTTTTAATTTATATATATATA
1 TATAAAAATTAAAAATAAATTTTTATTTTTAATTTTTATATATATA
23905933 TGTAAATTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 27 0.66
52 14 0.34
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (51 bp):
TATAAAAATTAAAAATAAATTTTTATTTTTAATTTTTATATATATACAAAT
Found at i:23906604 original size:19 final size:19
Alignment explanation
Indices: 23906561--23906596 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23906551 ATAATTTTTT
23906561 AATTAAAATAATAAAAATA
1 AATTAAAATAATAAAAATA
23906580 AATTAAAAT-ATAAAAAT
1 AATTAAAATAATAAAAAT
23906597 TCAATTAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AATTAAAATAATAAAAATA
Found at i:23910569 original size:21 final size:22
Alignment explanation
Indices: 23910539--23910579 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
23910529 ATCCAACTTA
*
23910539 CTAAATATTTTAT-ATTTTAAT
1 CTAAAAATTTTATGATTTTAAT
23910560 CTAAAAATTTTATGATTTTA
1 CTAAAAATTTTATGATTTTA
23910580 TCTTATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (22 bp):
CTAAAAATTTTATGATTTTAAT
Found at i:23911225 original size:73 final size:73
Alignment explanation
Indices: 23911140--23911276 Score: 256
Period size: 73 Copynumber: 1.9 Consensus size: 73
23911130 CCGTATTTTC
23911140 TATATATAATATATGTACCAACTATGTATATATACACTCACTAATTCCTCCTGTTAAAGAGCATA
1 TATATATAATATATGTACCAACTATGTATATATACACTCACTAATTCCTCCTGTTAAAGAGCATA
23911205 GTTATATA
66 GTTATATA
* *
23911213 TATATATGATATATGTACCAACTATGTATATATACACTCTCTAATTCCTCCTGTTAAAGAGCAT
1 TATATATAATATATGTACCAACTATGTATATATACACTCACTAATTCCTCCTGTTAAAGAGCAT
23911277 TGCCAGCAGC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (73 bp):
TATATATAATATATGTACCAACTATGTATATATACACTCACTAATTCCTCCTGTTAAAGAGCATA
GTTATATA
Found at i:23915586 original size:5 final size:5
Alignment explanation
Indices: 23915578--23915624 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
23915568 ATATAACATA
* *
23915578 ATATG ATATG ATATG ATATT AGAT- ATAT- ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATAT
23915625 TAGATATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
4 7 0.18
5 31 0.82
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.43
Consensus pattern (5 bp):
ATATG
Found at i:23915610 original size:28 final size:28
Alignment explanation
Indices: 23915578--23915649 Score: 123
Period size: 28 Copynumber: 2.7 Consensus size: 28
23915568 ATATAACATA
23915578 ATATGATATGATATGATATTAGATATAT
1 ATATGATATGATATGATATTAGATATAT
23915606 ATATGATATGATATGATATTAGATATAT
1 ATATGATATGATATGATATTAGATATAT
23915634 ATAT-ATAT-ATAT-ATAT
1 ATATGATATGATATGATAT
23915650 CATATCATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
25 4 0.09
26 4 0.09
27 4 0.09
28 32 0.73
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (28 bp):
ATATGATATGATATGATATTAGATATAT
Found at i:23915667 original size:5 final size:4
Alignment explanation
Indices: 23915578--23915664 Score: 61
Period size: 5 Copynumber: 20.0 Consensus size: 4
23915568 ATATAACATA
*
23915578 ATAT GATAT GATAT GATAT -TAG ATAT ATAT ATGAT ATGAT ATGAT AT-T
1 ATAT -ATAT -ATAT -ATAT ATAT ATAT ATAT AT-AT AT-AT AT-AT ATAT
*
23915626 AGAT ATAT ATAT ATAT ATAT ATAT CATAT CATAT CATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT -ATAT -ATAT -ATAT
23915665 CATGCTATAT
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
3 4 0.05
4 28 0.38
5 42 0.57
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (4 bp):
ATAT
Found at i:23917148 original size:59 final size:57
Alignment explanation
Indices: 23917072--23917582 Score: 317
Period size: 59 Copynumber: 8.7 Consensus size: 57
23917062 AGATAATGCC
23917072 TTTA-TTT-AAGAAAAATTGATACTTTCAACTTTTCTTCAAAAAATATTCTTTGAAATT
1 TTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCTT-AAAAAATATT-TTTGAAATT
* * * * *
23917129 TTTATTTTCAAGAAAAATTGATA-TTCTCAATTTTTTTTAAAAATATCTTTTTTAAAAAT
1 TTTATTTTCAAGAAAAATTGATACTT-TCAACTTTTCTTAAAAA-AT-ATTTTTGAAATT
* *** * * *
23917188 TTTATCTTCAAGAAAAATT-AGTACTTTCAACTTTTAAAAAAAAAAAAAATTTTGAAAAT
1 TTTATTTTCAAGAAAAATTGA-TACTTTCAACTTTT--CTTAAAAAATATTTTTGAAATT
* **** *
23917247 TTCATTTTCAA-ATAAAATTGATACTTTTC-ACTTTTTCTTAATTTTTTTTTTTGAAATT
1 TTTATTTTCAAGA-AAAATTGATAC-TTTCAAC-TTTTCTTAAAAAATATTTTTGAAATT
* * * * * **
23917305 TTTATTTTTAAGGACAATTGATACTTTTAATTTTTTCTTAAAGCAT-TTTTTGAAATT
1 TTTATTTTCAAGAAAAATTGATACTTTCAA-CTTTTCTTAAAAAATATTTTTGAAATT
* * *** *
23917362 TTTATTTTAAAAAAAAAAAAAATTGATACTTTCAACTTTTCCTTAAAGCTTTTTTTTTTTTGAAA
1 TTTATTTT-----CAAGAAAAATTGATACTTTCAACTTTT-CTTAAA----AAATATTTTTGAAA
23917427 TT
56 TT
* * **
23917429 TTTATTTTCAAGAAAAATTTATAC-TTCTAACATTTCCTTAAAGCAT-TTTTTGAAA-T
1 TTTATTTTCAAGAAAAATTGATACTTTC-AAC-TTTTCTTAAAAAATATTTTTGAAATT
* * ** *
23917485 TTTATTTTAAAGAAAAATTGATACTTTTAA-TTTT-TTTTAAAGTATTTTTCGAAATT
1 TTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCTTAAAAAATATTTTT-GAAATT
* * *
23917541 TTTATTTTTAAAAAAAATTGATACTTTCAGCTTTTCCTTAAA
1 TTTATTTTCAAGAAAAATTGATACTTTCAACTTTT-CTTAAA
23917583 GTATTTTTTT
Statistics
Matches: 350, Mismatches: 68, Indels: 70
0.72 0.14 0.14
Matches are distributed among these distances:
53 4 0.01
54 8 0.02
55 4 0.01
56 52 0.15
57 41 0.12
58 54 0.15
59 93 0.27
60 14 0.04
61 12 0.03
62 45 0.13
63 3 0.01
66 1 0.00
67 19 0.05
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (57 bp):
TTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCTTAAAAAATATTTTTGAAATT
Found at i:23917389 original size:62 final size:57
Alignment explanation
Indices: 23917237--23917591 Score: 309
Period size: 62 Copynumber: 6.1 Consensus size: 57
23917227 AAAAAAAAAA
* * * * * * ****
23917237 TTTTGAAAATTTCATTTTCAAATAAAATTGATACTTTTCACTTTTTCTTAATTTTTTT
1 TTTTGAAATTTTTATTTTAAAAAAAAATTGATACTTTTAACTTTTCCTTAA-AGCATT
* ** * * *
23917295 TTTTGAAATTTTTATTTTTAAGGACAATTGATACTTTTAATTTTTTCTTAAAGCATT
1 TTTTGAAATTTTTATTTTAAAAAAAAATTGATACTTTTAACTTTTCCTTAAAGCATT
* *
23917352 TTTTGAAATTTTTATTTTAAAAAAAAAAAAAATTGATACTTTCAACTTTTCCTTAAAGCTTTTTT
1 TTTTGAAATTTTTATTTT-----AAAAAAAAATTGATACTTTTAACTTTTCCTTAAAGC-----A
23917417 TT
56 TT
* * * * *
23917419 TTTTGAAATTTTTATTTTCAAGAAAAATTTATACTTCTAACATTTCCTTAAAGCATT
1 TTTTGAAATTTTTATTTTAAAAAAAAATTGATACTTTTAACTTTTCCTTAAAGCATT
* ** *
23917476 TTTTGAAA-TTTTATTTTAAAGAAAAATTGATACTTTTAA-TTTTTTTTAAAGTATT
1 TTTTGAAATTTTTATTTTAAAAAAAAATTGATACTTTTAACTTTTCCTTAAAGCATT
* * * * *
23917531 TTTCGAAATTTTTATTTTTAAAAAAAATTGATACTTTCAGCTTTTCCTTAAAGTATT
1 TTTTGAAATTTTTATTTTAAAAAAAAATTGATACTTTTAACTTTTCCTTAAAGCATT
23917588 TTTT
1 TTTT
23917592 TTTTATTTTT
Statistics
Matches: 243, Mismatches: 42, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
55 19 0.08
56 55 0.23
57 47 0.19
58 43 0.18
62 59 0.24
67 20 0.08
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.52
Consensus pattern (57 bp):
TTTTGAAATTTTTATTTTAAAAAAAAATTGATACTTTTAACTTTTCCTTAAAGCATT
Found at i:23917469 original size:124 final size:119
Alignment explanation
Indices: 23917260--23917591 Score: 340
Period size: 124 Copynumber: 2.8 Consensus size: 119
23917250 ATTTTCAAAT
* * * *
23917260 AAAATTGATACTTTTCACTTTTTCTTAATTTTTTTTTTTGAAATTTTTATTTTTAAGGACAATTG
1 AAAATTGATACTTTTCACTTTTCCTTAATTTTTTTTTTTGAAATTTTTATTTTCAAGAAAAATTG
* ** *
23917325 ATACTTTTAATTTTTTCTTAAAGCATTTTTTGAAATTTTTATTTTAAAAAAAAAA
66 ATACTTCTAACATTTCCTTAAAGCATTTTTTGAAA-TTTTATTTTAAAAAAAAAA
23917380 AAAATTGATAC-TTTCAACTTTTCCTTAAAGCTTTTTTTTTTTTGAAATTTTTATTTTCAAGAAA
1 AAAATTGATACTTTTC-ACTTTTCCTT-AA---TTTTTTTTTTTGAAATTTTTATTTTCAAGAAA
* *
23917444 AATTTATACTTCTAACATTTCCTTAAAGCATTTTTTGAAATTTTATTTT-----AAAGA
61 AATTGATACTTCTAACATTTCCTTAAAGCATTTTTTGAAATTTTATTTTAAAAAAAAAA
* ** ** * * * *
23917498 AAAATTGATACTTTT-AATTTTTTTTAA-AGTATTTTTCGAAATTTTTATTTTTAAAAAAAATTG
1 AAAATTGATACTTTTCACTTTTCCTTAATTTTTTTTTTTGAAATTTTTATTTTCAAGAAAAATTG
* * *
23917561 ATACTT-TCAGCTTTTCCTTAAAGTATTTTTT
66 ATACTTCT-AACATTTCCTTAAAGCATTTTTT
23917592 TTTTATTTTT
Statistics
Matches: 182, Mismatches: 23, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
111 1 0.01
112 55 0.30
116 2 0.01
117 7 0.04
118 15 0.08
119 7 0.04
120 20 0.11
121 2 0.01
123 9 0.05
124 64 0.35
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.52
Consensus pattern (119 bp):
AAAATTGATACTTTTCACTTTTCCTTAATTTTTTTTTTTGAAATTTTTATTTTCAAGAAAAATTG
ATACTTCTAACATTTCCTTAAAGCATTTTTTGAAATTTTATTTTAAAAAAAAAA
Found at i:23917489 original size:56 final size:56
Alignment explanation
Indices: 23917293--23917591 Score: 289
Period size: 57 Copynumber: 5.1 Consensus size: 56
23917283 CTTAATTTTT
* * * * *
23917293 TTTTTTGAAATTTTTATTTTTAAGGACAATTGATACTTTTAATTTTTTCTTAAAGCA
1 TTTTTTGAAATTTTTATTTTAAAGAAAAATTGATAC-TTTAACTTTTCCTTAAAGCA
*
23917350 TTTTTTGAAATTTTTATTTTAAAAAAAAAAAAAATTGATACTTTCAACTTTTCCTTAAAGCTTTT
1 TTTTTTGAAATTTTTATTTT-----AAAGAAAAATTGATACTTT-AACTTTTCCTTAAAGC----
*
23917415 TT
56 -A
* * *
23917417 TTTTTTGAAATTTTTATTTTCAAGAAAAATTTATACTTCTAACATTTCCTTAAAGCA
1 TTTTTTGAAATTTTTATTTTAAAGAAAAATTGATACTT-TAACTTTTCCTTAAAGCA
** *
23917474 TTTTTTGAAA-TTTTATTTTAAAGAAAAATTGATACTTTTAA-TTTTTTTTAAAGTA
1 TTTTTTGAAATTTTTATTTTAAAGAAAAATTGATAC-TTTAACTTTTCCTTAAAGCA
* * *
23917529 TTTTTCGAAATTTTTATTTTTAAA-AAAAATTGATACTTTCAGCTTTTCCTTAAAGTA
1 TTTTTTGAAATTTTTA-TTTTAAAGAAAAATTGATACTTT-AACTTTTCCTTAAAGCA
23917586 TTTTTT
1 TTTTTT
23917592 TTTTATTTTT
Statistics
Matches: 202, Mismatches: 23, Indels: 34
0.78 0.09 0.13
Matches are distributed among these distances:
55 22 0.11
56 44 0.22
57 56 0.28
61 3 0.01
62 56 0.28
63 1 0.00
67 20 0.10
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (56 bp):
TTTTTTGAAATTTTTATTTTAAAGAAAAATTGATACTTTAACTTTTCCTTAAAGCA
Found at i:23917643 original size:52 final size:52
Alignment explanation
Indices: 23917539--23917645 Score: 135
Period size: 51 Copynumber: 2.1 Consensus size: 52
23917529 TTTTTCGAAA
* * ** *
23917539 TTTTTATTTTTAAAAAAAATTGATACTTTCAGCTTTTCCTTAAAGTATTTTT
1 TTTTTATTTTTAAAAAAAATTAATACTTTCAGCTTTTCCTAAAAAAAATTTT
* *
23917591 TTTTTATTTTT-AAAAAAATTAATACTTTTAGTTTTTCCTAAAAAAACATTTT
1 TTTTTATTTTTAAAAAAAATTAATACTTTCAGCTTTTCCTAAAAAAA-ATTTT
23917643 TTT
1 TTT
23917646 AACATTTTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 29 0.62
52 18 0.38
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (52 bp):
TTTTTATTTTTAAAAAAAATTAATACTTTCAGCTTTTCCTAAAAAAAATTTT
Found at i:23917645 original size:112 final size:109
Alignment explanation
Indices: 23917415--23917635 Score: 241
Period size: 112 Copynumber: 2.0 Consensus size: 109
23917405 TAAAGCTTTT
* * *
23917415 TTTTTTTTGAAATTTTTATTTTCAAGAAAAATTTATACTTCTAACATTTCCTTAAAGCATTTTTT
1 TTTTTTTCGAAATTTTTATTTTCAAAAAAAATTGATACTTCTAACATTTCCTTAAAGCATTTTTT
* ** *
23917480 GAAATTTTATTTTAAAGAAAAATTGATACTTTTAATTTTTTTTAAAG
66 ---ATTTTATTTTAAAGAAAAATTAATACTTTTAATTTTTTAAAAAA
* * * * *
23917527 TATTTTTCGAAATTTTTATTTTTAAAAAAAATTGATACTT-TCAGCTTTTCCTTAAAGTATTTTT
1 TTTTTTTCGAAATTTTTATTTTCAAAAAAAATTGATACTTCT-AACATTTCCTTAAAGCATTTTT
* *
23917591 T-TTTTATTTTTAA-AAAAATTAATACTTTTAGTTTTTCCTAAAAAA
65 TATTTTATTTTAAAGAAAAATTAATACTTTTAATTTTT--TAAAAAA
23917636 ACATTTTTTT
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
107 21 0.23
108 11 0.12
109 4 0.04
111 1 0.01
112 55 0.60
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (109 bp):
TTTTTTTCGAAATTTTTATTTTCAAAAAAAATTGATACTTCTAACATTTCCTTAAAGCATTTTTT
ATTTTATTTTAAAGAAAAATTAATACTTTTAATTTTTTAAAAAA
Found at i:23917697 original size:4 final size:4
Alignment explanation
Indices: 23917688--23917770 Score: 55
Period size: 4 Copynumber: 20.8 Consensus size: 4
23917678 AATGTGCAAT
* * ** * *
23917688 TAAA TAAA TAAA TGATA TAAA TTTAA CCAA TAAA TAAA TAAG CAAA T-AA
1 TAAA TAAA TAAA T-AAA TAAA -TAAA TAAA TAAA TAAA TAAA TAAA TAAA
*
23917737 T-AA T-AA TAAA TAAA TAAA TAGA TAAA TAGAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA-AA TAA
23917771 TTAAGCAAAA
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
3 9 0.15
4 43 0.69
5 10 0.16
ACGTcount: A:0.65, C:0.04, G:0.05, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:23917755 original size:21 final size:22
Alignment explanation
Indices: 23917720--23917761 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
23917710 TTAACCAATA
*
23917720 AATAAATAAGCAAATA-ATAAT
1 AATAAATAAACAAATAGATAAT
*
23917741 AATAAATAAATAAATAGATAA
1 AATAAATAAACAAATAGATAA
23917762 ATAGAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (22 bp):
AATAAATAAACAAATAGATAAT
Found at i:23930428 original size:22 final size:20
Alignment explanation
Indices: 23930384--23930428 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
23930374 TTTAAATCTA
*
23930384 TTTTATTAAAAAATTAATGC
1 TTTTATTAAAAAATTAATAC
*
23930404 TTTTATTTAAAAAAATTGATAC
1 TTTTA-TT-AAAAAATTAATAC
23930426 TTT
1 TTT
23930429 CAACTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 2 0.10
22 14 0.67
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (20 bp):
TTTTATTAAAAAATTAATAC
Found at i:23930598 original size:58 final size:58
Alignment explanation
Indices: 23930414--23930802 Score: 360
Period size: 58 Copynumber: 6.5 Consensus size: 58
23930404 TTTTATTTAA
* * *
23930414 AAAAATTGATACTTTCAACTTTTTCTCAAAAAATATCTTTTGAAATTTTTATTTTCAA-
1 AAAAATTGATACTTTCAACTTTTTCTTAAAATAT-TTTTTTGAAATTTTTATTTTCAAG
* *
23930472 AGAAAATTGATACTCTCAA-TTTTTTTTCCAAAAATATCTTTTTTGAAATTTTT-TTTTCAAG
1 A-AAAATTGATACTTTCAACTTTTTCTT---AAAATAT-TTTTTTGAAATTTTTATTTTCAAG
* * *
23930533 AAAAATTGATATTTTCAACTTTTCCTTGAAAAT-TTTTTTTGAAATTTTCATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTTCTT-AAAATATTTTTTTGAAATTTTTATTTTCAAG
* * * * *
23930591 GAAAATTGATACTTTTAATTTTTTCTTAAAATATTTTTTTAAAATTTTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTGAAATTTTTATTTTCAAG
* * *
23930649 AAAAATTGATACTTTCAATTTTTTCTTAAAGTGTTTTTTTTTTTTTTTGAAATTTTTATTTTCAA
1 AAAAATTGATACTTTCAACTTTTTCTTAAA--------ATATTTTTTTGAAATTTTTATTTTCAA
*
23930714 A
58 G
** * * *
23930715 AAAAATTGATACTTTCAACTTTTTCTTAGAGTTTTTTTTTTTGAAA-TTTTATTGT-AAA
1 AAAAATTGATACTTTCAACTTTTTCTTA-A-AATATTTTTTTGAAATTTTTATTTTCAAG
* *
23930773 AAAAATTGGTACTTTTAA-TTTTTCTTAAAA
1 AAAAATTGATACTTTCAACTTTTTCTTAAAA
23930803 CAACATTTTT
Statistics
Matches: 279, Mismatches: 34, Indels: 39
0.79 0.10 0.11
Matches are distributed among these distances:
56 1 0.00
57 28 0.10
58 107 0.38
59 29 0.10
60 36 0.13
61 27 0.10
66 50 0.18
67 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.52
Consensus pattern (58 bp):
AAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTGAAATTTTTATTTTCAAG
Found at i:23930702 original size:66 final size:65
Alignment explanation
Indices: 23930624--23930756 Score: 212
Period size: 66 Copynumber: 2.0 Consensus size: 65
23930614 TCTTAAAATA
* * *
23930624 TTTTTTTAAAATTTTTATTTTTAAGAAAAATTGATACTTTCAATTTTTTCTTAAAGTGTTTTTTT
1 TTTTTTTAAAATTTTTATTTTCAAAAAAAATTGATACTTTCAACTTTTTCTTAAAGT-TTTTTTT
23930689 T
65 T
* *
23930690 TTTTTTTGAAATTTTTATTTTCAAAAAAAATTGATACTTTCAACTTTTTCTTAGAGTTTTTTTTT
1 TTTTTTTAAAATTTTTATTTTCAAAAAAAATTGATACTTTCAACTTTTTCTTAAAGTTTTTTTTT
23930755 TT
1 TT
23930757 GAAATTTTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
65 10 0.16
66 52 0.84
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (65 bp):
TTTTTTTAAAATTTTTATTTTCAAAAAAAATTGATACTTTCAACTTTTTCTTAAAGTTTTTTTTT
Found at i:23930738 original size:124 final size:123
Alignment explanation
Indices: 23930565--23930801 Score: 316
Period size: 124 Copynumber: 1.9 Consensus size: 123
23930555 TCCTTGAAAA
** * *
23930565 TTTTTTTTGAAATTTTCATTTTCAAGGAAAATTGATACTTTTAATTTTTTCTTA-A-AATATTTT
1 TTTTTTTTGAAATTTTCATTTTCAAAAAAAATTGATACTTTCAACTTTTTCTTAGAGAATATTTT
* *
23930628 TTTAAAATTTTTATTTTTAAGAAAAATTGATACTTTCAATTTTTTCTTAAAGTGTTTTTTT
66 TTTAAAA-TTTTA-TTGTAAAAAAAATTGATACTTTCAA-TTTTTCTTAAAGTGTTTTTTT
* ** *
23930689 TTTTTTTTGAAATTTTTATTTTCAAAAAAAATTGATACTTTCAACTTTTTCTTAGAGTTTTTTTT
1 TTTTTTTTGAAATTTTCATTTTCAAAAAAAATTGATACTTTCAACTTTTTCTTAGAGAATATTTT
* * *
23930754 TTTGAAATTTTATTGTAAAAAAAATTGGTACTTTTAATTTTTCTTAAA
66 TTTAAAATTTTATTGTAAAAAAAATTGATACTTTCAATTTTTCTTAAA
23930802 ACAACATTTT
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
123 11 0.11
124 70 0.71
125 6 0.06
126 11 0.11
ACGTcount: A:0.31, C:0.06, G:0.07, T:0.56
Consensus pattern (123 bp):
TTTTTTTTGAAATTTTCATTTTCAAAAAAAATTGATACTTTCAACTTTTTCTTAGAGAATATTTT
TTTAAAATTTTATTGTAAAAAAAATTGATACTTTCAATTTTTCTTAAAGTGTTTTTTT
Found at i:23939822 original size:14 final size:14
Alignment explanation
Indices: 23939803--23939836 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
23939793 GATTTCTAAT
23939803 CTTTATTAAAGTTA
1 CTTTATTAAAGTTA
*
23939817 CTTTATTATAGTTA
1 CTTTATTAAAGTTA
23939831 CTTTAT
1 CTTTAT
23939837 GTTAAGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (14 bp):
CTTTATTAAAGTTA
Found at i:23939905 original size:47 final size:44
Alignment explanation
Indices: 23939866--23939951 Score: 120
Period size: 45 Copynumber: 2.0 Consensus size: 44
23939856 TAATCATGTC
23939866 AAGTCCTATTTACTTT-TTTTTTTTCTTATATAAGTTGTAAATT
1 AAGTCCTATTTACTTTCTTTTTTTTCTTATATAAGTTGTAAATT
** **
23939909 ACTTTTTATTTACTTTGCTTTTTTTTCTTATATAAGTTGTAAA
1 AAGTCCTATTTACTTT-CTTTTTTTTCTTATATAAGTTGTAAA
23939952 CTATTTATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 12 0.32
45 25 0.68
ACGTcount: A:0.24, C:0.09, G:0.07, T:0.59
Consensus pattern (44 bp):
AAGTCCTATTTACTTTCTTTTTTTTCTTATATAAGTTGTAAATT
Found at i:23940573 original size:30 final size:30
Alignment explanation
Indices: 23940499--23940561 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
23940489 TATTTTATAA
*
23940499 GATTTCTTACAAGGATAGGATTAACTTGAG
1 GATTTCTTACAAAGATAGGATTAACTTGAG
23940529 GATTTCTTACAAAGATAGGATTAACTTGAG
1 GATTTCTTACAAAGATAGGATTAACTTGAG
23940559 GAT
1 GAT
23940562 ACTTCTCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (30 bp):
GATTTCTTACAAAGATAGGATTAACTTGAG
Found at i:23941341 original size:2 final size:2
Alignment explanation
Indices: 23941334--23941358 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23941324 TATAGCTGCA
23941334 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
23941359 GACACACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23942390 original size:16 final size:16
Alignment explanation
Indices: 23942371--23942404 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23942361 TAATTTACAC
23942371 TAGTATTAAATTTTTT
1 TAGTATTAAATTTTTT
* *
23942387 TAGTTTTATATTTTTT
1 TAGTATTAAATTTTTT
23942403 TA
1 TA
23942405 ACCATTTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (16 bp):
TAGTATTAAATTTTTT
Found at i:23948541 original size:2 final size:2
Alignment explanation
Indices: 23948534--23948558 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23948524 TTAACCTATT
23948534 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
23948559 TAAACTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23949256 original size:2 final size:2
Alignment explanation
Indices: 23949249--23949300 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
23949239 CATATGATAC
* * * * *
23949249 AT AT AT AT AT TT AT AT AT AC AT AC AT AC AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23949291 AT AT AT AT AT
1 AT AT AT AT AT
23949301 CCACACACCC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:23949377 original size:2 final size:2
Alignment explanation
Indices: 23949370--23949402 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23949360 CCAAAAGTAT
23949370 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23949403 CTCCACACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23949445 original size:104 final size:104
Alignment explanation
Indices: 23949281--23949474 Score: 361
Period size: 104 Copynumber: 1.9 Consensus size: 104
23949271 ACATACATAC
* *
23949281 ATATATATATATATATATATCCACACACCCAACAGCATGAGAAATTACTTTAGTTCTTGTCTTAC
1 ATATATATATATATATATATCCACACACACAACAGCATAAGAAATTACTTTAGTTCTTGTCTTAC
23949346 ATCGTAGGGATTAACCAAAAGTATTATATATATATATAT
66 ATCGTAGGGATTAACCAAAAGTATTATATATATATATAT
*
23949385 ATATATATATATATATATCTCCACACACACAACAGCATAAGAAATTACTTTAGTTCTTGTCTTAC
1 ATATATATATATATATATATCCACACACACAACAGCATAAGAAATTACTTTAGTTCTTGTCTTAC
23949450 ATCGTAGGGATTAACCAAAAGTATT
66 ATCGTAGGGATTAACCAAAAGTATT
23949475 CCTCTCTTGC
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 87 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (104 bp):
ATATATATATATATATATATCCACACACACAACAGCATAAGAAATTACTTTAGTTCTTGTCTTAC
ATCGTAGGGATTAACCAAAAGTATTATATATATATATAT
Found at i:23950473 original size:23 final size:24
Alignment explanation
Indices: 23950441--23950490 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
23950431 CTCGACGTAA
*
23950441 ATTTACATATATAT-AATTTATTT
1 ATTTACATATATATGAATTAATTT
*
23950464 ATTTATATATATATGAATTAATTT
1 ATTTACATATATATGAATTAATTT
23950488 ATT
1 ATT
23950491 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTACATATATATGAATTAATTT
Found at i:23950578 original size:28 final size:28
Alignment explanation
Indices: 23950541--23950600 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
23950531 TTGTCATTTT
*
23950541 TATATAATTTTTATTTTAAATTTTTACA
1 TATATAATTTTTATTTTAAATTTATACA
* *
23950569 TATATAATTTTTATTTTTAATTTATATA
1 TATATAATTTTTATTTTAAATTTATACA
23950597 TATA
1 TATA
23950601 CATTAAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (28 bp):
TATATAATTTTTATTTTAAATTTATACA
Found at i:23956515 original size:24 final size:25
Alignment explanation
Indices: 23956488--23956582 Score: 74
Period size: 24 Copynumber: 3.9 Consensus size: 25
23956478 GTTCGTTTTA
23956488 TATAAAATAT-TAAATTTATTATGT
1 TATAAAATATATAAATTTATTATGT
** * **
23956512 TATAATTTATATAAATATATTA-AA
1 TATAAAATATATAAATTTATTATGT
*
23956536 TATAAAATATAT--ATTTTTTATGTT
1 TATAAAATATATAAATTTATTATG-T
*
23956560 TATTAAATATATATAATTT-TTAT
1 TATAAAATATATA-AATTTATTAT
23956583 TAAAATTTTA
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
22 6 0.11
24 29 0.55
25 10 0.19
26 4 0.08
27 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
TATAAAATATATAAATTTATTATGT
Found at i:23956596 original size:18 final size:20
Alignment explanation
Indices: 23956558--23956600 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
23956548 ATTTTTTATG
23956558 TTTATTAAATATATATAATT
1 TTTATTAAATATATATAATT
*
23956578 TTTATTAAA-AT-TTTAATT
1 TTTATTAAATATATATAATT
23956596 TTTAT
1 TTTAT
23956601 CATTTTTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.50
19 2 0.09
20 9 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTATTAAATATATATAATT
Found at i:23958660 original size:21 final size:21
Alignment explanation
Indices: 23958636--23958686 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
23958626 ACTCGAATTA
23958636 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
23958657 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
23958678 AT-AAATATT
1 ATAAAATATT
23958687 TAAAAATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:23958695 original size:16 final size:16
Alignment explanation
Indices: 23958674--23958734 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
23958664 ATTATTTTTT
*
23958674 AAATATAAATATTTAA
1 AAATATAAATATATAA
* *
23958690 AAATATTATTATATAA
1 AAATATAAATATATAA
*
23958706 ATATATATATATATAATAA
1 A-A-ATATAAATAT-ATAA
23958725 AAAT-TAAATA
1 AAATATAAATA
23958735 ATTAAATTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
16 19 0.54
17 3 0.09
18 8 0.23
19 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:23958695 original size:30 final size:30
Alignment explanation
Indices: 23958659--23958715 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
23958649 TTTTAAATAT
* *
23958659 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATTATTATATAAATATAAATATTTA
*
23958689 AAAATATTATTATATAAATATATATAT
1 AAAATATTATTATATAAATATAAATAT
23958716 ATATAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
AAAATATTATTATATAAATATAAATATTTA
Found at i:23969323 original size:16 final size:15
Alignment explanation
Indices: 23969302--23969331 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23969292 TCAAAAATAA
23969302 TTTTTTTTCTTTTTTC
1 TTTTTTTT-TTTTTTC
23969318 TTTTTTTTTTTTTT
1 TTTTTTTTTTTTTT
23969332 AAACGAGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (15 bp):
TTTTTTTTTTTTTTC
Found at i:23981984 original size:6 final size:6
Alignment explanation
Indices: 23981969--23982008 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
23981959 TTATTAAAAT
*
23981969 AATT-A AATTAA AATTAA AATTAAA AATCAA AATTAA AATT
1 AATTAA AATTAA AATTAA AATT-AA AATTAA AATTAA AATT
23982009 TTGTTATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
5 4 0.13
6 22 0.71
7 5 0.16
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:23982000 original size:13 final size:13
Alignment explanation
Indices: 23981973--23982006 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
23981963 TAAAATAATT
*
23981973 AAATT-AAAATTA
1 AAATTAAAAATCA
23981985 AAATTAAAAATCA
1 AAATTAAAAATCA
23981998 AAATTAAAA
1 AAATTAAAA
23982007 TTTTGTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATTAAAAATCA
Found at i:23983323 original size:17 final size:16
Alignment explanation
Indices: 23983288--23983331 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
23983278 TGTCATAATT
23983288 TATATTTATATAAAAA
1 TATATTTATATAAAAA
* *
23983304 TATATTTTTAT-TAAA
1 TATATTTATATAAAAA
*
23983319 TATATATATATAA
1 TATATTTATATAA
23983332 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATATTTATATAAAAA
Found at i:23986860 original size:21 final size:22
Alignment explanation
Indices: 23986820--23986860 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
23986810 TAGGTACCCA
*
23986820 TAAATATTTTAAGTTCAAATAT
1 TAAATATTTTAAGTTAAAATAT
*
23986842 TAAATA-TTTAATTTAAAAT
1 TAAATATTTTAAGTTAAAAT
23986861 CAAACGATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TAAATATTTTAAGTTAAAATAT
Found at i:23988191 original size:52 final size:52
Alignment explanation
Indices: 23988098--23988211 Score: 120
Period size: 52 Copynumber: 2.2 Consensus size: 52
23988088 TAAAAGAAGG
* * * ** *
23988098 GATTCTTAATAGGTAAGTTTGACTTGTAAGAGAAGATTTCTAAAAGAAAAGA
1 GATTTTTAATAGGCAAATTTGACTTACAAGAGAAGAATTCTAAAAGAAAAGA
* * * * * *
23988150 GATTTTTAATAGGCAAATTTGACTTACAGGATAAGAATTCTAAGAGGAGAGG
1 GATTTTTAATAGGCAAATTTGACTTACAAGAGAAGAATTCTAAAAGAAAAGA
23988202 GATTTTTAAT
1 GATTTTTAAT
23988212 TAGCAAGTTT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.32
Consensus pattern (52 bp):
GATTTTTAATAGGCAAATTTGACTTACAAGAGAAGAATTCTAAAAGAAAAGA
Found at i:23999788 original size:30 final size:30
Alignment explanation
Indices: 23999716--23999788 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
23999706 CAAATTAAAG
23999716 ATTAAGATTTAAAGATTTATTTGGATATAA
1 ATTAAGATTTAAAGATTTATTTGGATATAA
* * * *
23999746 ATTAAAAGTTAAATATTTATTTGGATGTAA
1 ATTAAGATTTAAAGATTTATTTGGATATAA
23999776 ATTAAGATTTAAA
1 ATTAAGATTTAAA
23999789 ACATATTTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (30 bp):
ATTAAGATTTAAAGATTTATTTGGATATAA
Found at i:24000943 original size:20 final size:19
Alignment explanation
Indices: 24000920--24000960 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
24000910 TCAAATTATA
*
24000920 TATATATATTTT-AGTTTT
1 TATATATATTTTAAATTTT
24000938 TATATATATTTTAAATTTT
1 TATATATATTTTAAATTTT
24000957 TATA
1 TATA
24000961 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TATATATATTTTAAATTTT
Found at i:24007006 original size:168 final size:168
Alignment explanation
Indices: 24006721--24007037 Score: 465
Period size: 168 Copynumber: 1.9 Consensus size: 168
24006711 CAACACTACG
*
24006721 TTTTGTCCTGTTTTAGTAGTATTTTGTCGTTTTGAGGGCGAAGGAAATAAGAGGCCGATTTTGTT
1 TTTTGTCCTGTTTTAGTAGTATTTTGTCGTTTTGAGGACGAAGGAAATAAGAGGCCGATTTTGTT
* *
24006786 TCAAACAGTTCCGCCTAAGTTACTGGATAAGCAAAGCAAGGGCGTTAACTTTAAACTAGGTTTTG
66 TCAAACAGTTCAGCCTAAGTTACTGGATAAGCAAAGCAAGGGCATTAACTTTAAACTAGGTTTTG
*
24006851 ATAATGCATTAAATAGATGTTGTCCTTCAGCTCTACAT
131 ATAAAGCATTAAATAGATGTTGTCCTTCAGCTCTACAT
* * * * *
24006889 TTTTGTTCTGTTTTAGTCGTATTTTGTTGTTTTGAGAGAC-AAGGAAATACGAGGCTGATTTTGT
1 TTTTGTCCTGTTTTAGTAGTATTTTGTCGTTTTGAG-GACGAAGGAAATAAGAGGCCGATTTTGT
*** * * ** *
24006953 TTTGGACAGTTCAGCCTGAGTTATTGGATCGGCAAAGCAAGGGCATTAACTTTAAACTTGGTTTT
65 TTCAAACAGTTCAGCCTAAGTTACTGGATAAGCAAAGCAAGGGCATTAACTTTAAACTAGGTTTT
24007018 GATAAAGCATTAAATAGATG
130 GATAAAGCATTAAATAGATG
24007038 CTTTTGAAAG
Statistics
Matches: 131, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
168 129 0.98
169 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (168 bp):
TTTTGTCCTGTTTTAGTAGTATTTTGTCGTTTTGAGGACGAAGGAAATAAGAGGCCGATTTTGTT
TCAAACAGTTCAGCCTAAGTTACTGGATAAGCAAAGCAAGGGCATTAACTTTAAACTAGGTTTTG
ATAAAGCATTAAATAGATGTTGTCCTTCAGCTCTACAT
Found at i:24007737 original size:3 final size:3
Alignment explanation
Indices: 24007729--24007786 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
24007719 GCTTATGCTC
24007729 TAT TAT TAT TAT 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 TAT
24007777 TAT TAT TAT T
1 TAT TAT TAT T
24007787 TGCATTGTTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:24015716 original size:27 final size:28
Alignment explanation
Indices: 24015686--24015738 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
24015676 TCCAATTTTT
24015686 AATTAACAAA-TAAATAGCAT-TAAATGA
1 AATTAACAAATTAAATAG-ATATAAATGA
*
24015713 AATTATCAAATTAAATAGATATAAAT
1 AATTAACAAATTAAATAGATATAAAT
24015739 TATATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (28 bp):
AATTAACAAATTAAATAGATATAAATGA
Found at i:24018575 original size:17 final size:18
Alignment explanation
Indices: 24018548--24018582 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
24018538 GTAAAAAAAA
24018548 TTTTTTAAATTATTTTTG
1 TTTTTTAAATTATTTTTG
*
24018566 TTTTTT-AATTTTTTTTG
1 TTTTTTAAATTATTTTTG
24018583 GGATGTCCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTTTTAAATTATTTTTG
Found at i:24020535 original size:22 final size:20
Alignment explanation
Indices: 24020492--24020529 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24020482 ATTTATATAT
*
24020492 AATAA-ATAAATTTTTATTA
1 AATAATATAAATTATTATTA
24020511 AATAATATAAATTATTATT
1 AATAATATAAATTATTATT
24020530 CTAAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATAATATAAATTATTATTA
Found at i:24020573 original size:26 final size:25
Alignment explanation
Indices: 24020544--24020592 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
24020534 ATTAATTAAA
*
24020544 ATTAATATATTTTTATCAAAAAATAT
1 ATTAATATATGTTTAT-AAAAAATAT
24020570 ATTAATATATGTTTATAAAAAAT
1 ATTAATATATGTTTATAAAAAAT
24020593 CACTTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
ATTAATATATGTTTATAAAAAATAT
Found at i:24020602 original size:26 final size:26
Alignment explanation
Indices: 24020547--24020605 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
24020537 AATTAAAATT
* *
24020547 AATATATTTTTATCAAAAAATATATT
1 AATATATGTTTATCAAAAAATATATA
24020573 AATATATGTTTAT-AAAAAATCACT-TA
1 AATATATGTTTATCAAAAAAT-A-TATA
24020599 AATATAT
1 AATATAT
24020606 ATGATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 7 0.24
26 21 0.72
27 1 0.03
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (26 bp):
AATATATGTTTATCAAAAAATATATA
Found at i:24020706 original size:18 final size:18
Alignment explanation
Indices: 24020683--24020720 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
24020673 CATATTTATT
*
24020683 AAATAATCATAAATATAA
1 AAATAATAATAAATATAA
*
24020701 AAATAATAATAAATTTAA
1 AAATAATAATAAATATAA
24020719 AA
1 AA
24020721 TATCATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAATAATAAATATAA
Found at i:24024369 original size:16 final size:16
Alignment explanation
Indices: 24024350--24024382 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
24024340 TTTATTAAAA
24024350 TTTTAAATTATATTAT
1 TTTTAAATTATATTAT
24024366 TTTTAAATTATATTAT
1 TTTTAAATTATATTAT
24024382 T
1 T
24024383 ATATCTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTAAATTATATTAT
Found at i:24026616 original size:150 final size:152
Alignment explanation
Indices: 24026431--24026710 Score: 440
Period size: 151 Copynumber: 1.9 Consensus size: 152
24026421 GTATTGACAT
*
24026431 AAAATATAAAATATTATTTTTAATTTTTTTAATTTATATATAATTATTATTAAAATTTTAAATCA
1 AAAATATAAAATATTATTTTTAATTTTTTTAATTTATATATAATAATTATTAAAATTTTAAATCA
* * * * *
24026496 CATTATTTTTTTGTTTAA-TTTTATATCGTATTAATATCATATTATTTTATAATATTTTAAATTA
66 CATTATTTTTATATTTAATTTTTATATCATACTAATATCATATTATTTTATAACATTTTAAATTA
24026560 TATTATAATTTATATTAATATA
131 TATTATAATTTATATTAATATA
*
24026582 AAAATATAAAATA-T-TTTTTAATTTTATTTAATTTATATATAATAATTATTAAAATTTTAAATT
1 AAAATATAAAATATTATTTTTAATTTT-TTTAATTTATATATAATAATTATTAAAATTTTAAATC
* * *
24026645 ATATTATTTTTATATTTAATTTTTATATCATACTAATATTATATTATTTTATCACATTTTAAATT
65 ACATTATTTTTATATTTAATTTTTATATCATACTAATATCATATTATTTTATAACATTTTAAATT
24026710 A
130 A
24026711 ACAGATTCAT
Statistics
Matches: 117, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
149 11 0.09
150 52 0.44
151 54 0.46
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (152 bp):
AAAATATAAAATATTATTTTTAATTTTTTTAATTTATATATAATAATTATTAAAATTTTAAATCA
CATTATTTTTATATTTAATTTTTATATCATACTAATATCATATTATTTTATAACATTTTAAATTA
TATTATAATTTATATTAATATA
Found at i:24027975 original size:8 final size:8
Alignment explanation
Indices: 24027968--24028023 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 8
24027958 AAAGTAAATT
*
24027968 TAATAATT
1 TAATAATA
24027976 TAA-AATA
1 TAATAATA
24027983 TAATAATA
1 TAATAATA
24027991 TAAT-ATA
1 TAATAATA
24027998 -ATATAATA
1 TA-ATAATA
24028006 T-ATAAATA
1 TAAT-AATA
24028014 TAA-AATA
1 TAATAATA
24028021 TAA
1 TAA
24028024 AAAAAACGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
6 1 0.02
7 20 0.49
8 19 0.46
9 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAATAATA
Found at i:24027993 original size:5 final size:5
Alignment explanation
Indices: 24027985--24028016 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
24027975 TTAAAATATA
24027985 ATAAT ATAAT ATAAT ATAAT AT-AT A-AAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
24028017 AATATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 6 0.24
5 19 0.76
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:24028000 original size:18 final size:18
Alignment explanation
Indices: 24027979--24028016 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
24027969 AATAATTTAA
24027979 AATATAATA-ATATAATAT
1 AATATAATATATA-AATAT
24027997 AATATAATATATAAATAT
1 AATATAATATATAAATAT
24028015 AA
1 AA
24028017 AATATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AATATAATATATAAATAT
Found at i:24028008 original size:25 final size:25
Alignment explanation
Indices: 24027970--24028023 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
24027960 AGTAAATTTA
* *
24027970 ATAATTTAAAATAT-AATAATATAAT
1 ATAATATAAAATATAAAT-ATAAAAT
*
24027995 ATAATATAATATATAAATATAAAAT
1 ATAATATAAAATATAAATATAAAAT
24028020 ATAA
1 ATAA
24028024 AAAAAACGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATATAAAATATAAATATAAAAT
Found at i:24028024 original size:13 final size:12
Alignment explanation
Indices: 24027970--24028023 Score: 63
Period size: 13 Copynumber: 4.3 Consensus size: 12
24027960 AGTAAATTTA
*
24027970 ATAATTTAAAAT
1 ATAATATAAAAT
*
24027982 ATAATAATATAAT
1 ATAAT-ATAAAAT
*
24027995 ATAATATAATAT
1 ATAATATAAAAT
24028007 ATAAATATAAAAT
1 AT-AATATAAAAT
24028020 ATAA
1 ATAA
24028024 AAAAAACGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 14 0.40
13 21 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:24028196 original size:25 final size:25
Alignment explanation
Indices: 24028150--24028198 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
24028140 TAATATAAAT
* *
24028150 ATATAAATTATTAATATTTTATATG
1 ATATAAATTATAAATATATTATATG
24028175 ATATAAATATATAAAT-TATTATAT
1 ATATAAAT-TATAAATATATTATAT
24028199 CTAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
ATATAAATTATAAATATATTATATG
Found at i:24028198 original size:20 final size:20
Alignment explanation
Indices: 24028131--24028198 Score: 51
Period size: 20 Copynumber: 3.8 Consensus size: 20
24028121 TAATTTTTTT
* *
24028131 TATAAAATATAATATAAATA
1 TATAAATTATTATATAAATA
24028151 TATAAATTATTA-AT--AT-
1 TATAAATTATTATATAAATA
* *
24028167 T-T-TA-TATGATATAAATA
1 TATAAATTATTATATAAATA
24028184 TATAAATTATTATAT
1 TATAAATTATTATAT
24028199 CTAATTTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
13 4 0.11
14 3 0.09
15 1 0.03
16 3 0.09
17 3 0.09
18 1 0.03
19 3 0.09
20 17 0.49
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (20 bp):
TATAAATTATTATATAAATA
Found at i:24030969 original size:28 final size:29
Alignment explanation
Indices: 24030928--24030989 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
24030918 CACTATGGCT
*
24030928 GATAATTTGTAAAAGTACATCAACAGTGA
1 GATAATTTGTAAAAATACATCAACAGTGA
* *
24030957 GATAA-TTGTAAAAATGCATCAATAGTGA
1 GATAATTTGTAAAAATACATCAACAGTGA
24030985 GATAA
1 GATAA
24030990 ATTATAACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.47, C:0.08, G:0.18, T:0.27
Consensus pattern (29 bp):
GATAATTTGTAAAAATACATCAACAGTGA
Found at i:24035457 original size:14 final size:14
Alignment explanation
Indices: 24035438--24035488 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
24035428 TTAATTTGAA
24035438 TAAAAATAAATATT
1 TAAAAATAAATATT
**
24035452 TAAAAATTCAAATAGA
1 TAAAAA-T-AAATATT
*
24035468 TAAAAATAATTATT
1 TAAAAATAAATATT
24035482 TAAAAAT
1 TAAAAAT
24035489 TTAACTCATT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 17 0.57
15 2 0.07
16 11 0.37
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (14 bp):
TAAAAATAAATATT
Done.