Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold486
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: 208893
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
File 1 of 2
Found at i:3566 original size:11 final size:11
Alignment explanation
Indices: 3550--3579 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
3540 ATTATTTTGG
3550 AGTAATAGTAA
1 AGTAATAGTAA
3561 AGTAATAGTAA
1 AGTAATAGTAA
3572 AGTAATAG
1 AGTAATAG
3580 AAGCAGCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.20, T:0.27
Consensus pattern (11 bp):
AGTAATAGTAA
Found at i:7234 original size:20 final size:20
Alignment explanation
Indices: 7166--7234 Score: 52
Period size: 20 Copynumber: 3.4 Consensus size: 20
7156 AAAAATCAAT
*
7166 TTTTAA-AATAATATATTTAA
1 TTTTAATAAT-ATTTATTTAA
* *
7186 TTTAAATTATATATTA-TTATA
1 TTTTAATAATAT-TTATTTA-A
*
7207 TTAATAATAATATTTATTTAA
1 TT-TTAATAATATTTATTTAA
7228 TTTTAAT
1 TTTTAAT
7235 TCTAAAAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
20 14 0.38
21 13 0.35
22 10 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAATAATATTTATTTAA
Found at i:7367 original size:22 final size:20
Alignment explanation
Indices: 7340--7387 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
7330 ATAAAAATAA
7340 ATTATTAATCTAATAAATATT
1 ATTATTAATCTAATAAA-ATT
* *
7361 ATCTATTATTTTAATAAAATT
1 AT-TATTAATCTAATAAAATT
7382 ATTATT
1 ATTATT
7388 TGATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.17
21 7 0.29
22 13 0.54
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTATTAATCTAATAAAATT
Found at i:7393 original size:22 final size:22
Alignment explanation
Indices: 7350--7396 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
7340 ATTATTAATC
7350 TAATAAATATTATCTATTATTT
1 TAATAAATATTATCTATTATTT
7372 TAATAAA-ATTAT-TATTTGATTT
1 TAATAAATATTATCTA-TT-ATTT
7394 TAA
1 TAA
7397 ATAGTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 2 0.09
21 7 0.30
22 14 0.61
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TAATAAATATTATCTATTATTT
Found at i:7699 original size:16 final size:16
Alignment explanation
Indices: 7677--7731 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
7667 ATGATAATTA
*
7677 TAATATTTAATAT-TT
1 TAATATTTAATATAAT
7692 TAA-ATATTAATATAAT
1 TAATAT-TTAATATAAT
*
7708 TAATATTTAATAATAAA
1 TAATATTTAAT-ATAAT
7725 TAATATT
1 TAATATT
7732 ACTTTAAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 2 0.06
15 10 0.29
16 9 0.26
17 13 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATATTTAATATAAT
Found at i:7866 original size:23 final size:23
Alignment explanation
Indices: 7819--7866 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
7809 ATTTGAATGA
* **
7819 TTAATATTAAAATATTTATCTTT
1 TTAATAATAAAATATTTATAATT
*
7842 TTAATAATAAAATATTTTTAATT
1 TTAATAATAAAATATTTATAATT
7865 TT
1 TT
7867 TTAATATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
TTAATAATAAAATATTTATAATT
Found at i:8211 original size:5 final size:5
Alignment explanation
Indices: 8187--8211 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
8177 AATTTATTAA
8187 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
8212 GATATTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:8414 original size:24 final size:23
Alignment explanation
Indices: 8325--8418 Score: 71
Period size: 24 Copynumber: 3.8 Consensus size: 23
8315 TTTAATTATA
*
8325 TTTTATATAATAGAAATAAAATAT
1 TTTTATATAATA-ATATAAAATAT
* * * *
8349 ATTTATATTACAATTTAAAATTAT
1 TTTTATATAATAATATAAAA-TAT
**
8373 ATAATATAATAGATAATATAAAATAAT
1 -TTTTAT-ATA-ATAATATAAAAT-AT
8400 TTTTATATAATAATATAAA
1 TTTTATATAATAATATAAA
8419 CAATTTAAAT
Statistics
Matches: 52, Mismatches: 13, Indels: 10
0.69 0.17 0.13
Matches are distributed among these distances:
23 6 0.12
24 22 0.42
25 6 0.12
26 7 0.13
27 11 0.21
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (23 bp):
TTTTATATAATAATATAAAATAT
Found at i:9108 original size:20 final size:21
Alignment explanation
Indices: 9066--9115 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
9056 TTAATAAATC
9066 ATATTAAA-ATAAAATATTAA
1 ATATTAAATATAAAATATTAA
* *
9086 ATATTAAATATATAAT-TTTA
1 ATATTAAATATAAAATATTAA
*
9106 ATAATAAATA
1 ATATTAAATA
9116 GTTGTTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATTAAATATAAAATATTAA
Found at i:9127 original size:31 final size:33
Alignment explanation
Indices: 9088--9184 Score: 92
Period size: 37 Copynumber: 2.8 Consensus size: 33
9078 AATATTAAAT
9088 ATTAAATATATAATTTTAATAATAAAT-AGTTG
1 ATTAAATATATAATTTTAATAATAAATAAGTTG
* *
9120 -TTAAATATAATAAATATTTAATAAAAATATAAATTTG
1 ATTAAATAT-AT-AAT-TTTAATAATAA-AT-AAGTTG
9157 ATTAAATAATATAATTTTTAAT-ATAAAT
1 ATTAAAT-ATATAA-TTTTAATAATAAAT
9185 TTAAAGGTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
31 8 0.15
32 2 0.04
33 3 0.06
34 10 0.19
35 4 0.08
36 3 0.06
37 12 0.23
38 9 0.17
39 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (33 bp):
ATTAAATATATAATTTTAATAATAAATAAGTTG
Found at i:9133 original size:70 final size:68
Alignment explanation
Indices: 9051--9184 Score: 168
Period size: 70 Copynumber: 1.9 Consensus size: 68
9041 TTATTATTAA
9051 TTAAATTAATAAATCATATTAAAATAAAATATTAAA-T-ATTAAAT-ATATAA-TTTTAATAATA
1 TTAAATTAATAAAT-AT-TTAAAA-AAAATA-TAAATTGATTAAATAATATAATTTTTAAT-ATA
9112 AATAGTTG
61 AATAGTTG
*
9120 TTAAATATAATAAATATTTAATAAAAATATAAATTTGATTAAATAATATAATTTTTAATATAAAT
1 TTAAAT-TAATAAATATTTAAAAAAAATATAAA-TTGATTAAATAATATAATTTTTAATATAAAT
9185 TTAAAGGTTA
Statistics
Matches: 58, Mismatches: 1, Indels: 11
0.83 0.01 0.16
Matches are distributed among these distances:
66 4 0.07
67 6 0.10
68 6 0.10
69 15 0.26
70 20 0.34
71 7 0.12
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (68 bp):
TTAAATTAATAAATATTTAAAAAAAATATAAATTGATTAAATAATATAATTTTTAATATAAATAG
TTG
Found at i:9144 original size:20 final size:20
Alignment explanation
Indices: 9105--9153 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
9095 ATATAATTTT
**
9105 AATAATAAATAGTTGTTAAA
1 AATAATAAATAGTTAATAAA
* *
9125 TATAATAAATATTTAATAAA
1 AATAATAAATAGTTAATAAA
9145 AAT-ATAAAT
1 AATAATAAAT
9154 TTGATTAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
AATAATAAATAGTTAATAAA
Found at i:9153 original size:19 final size:18
Alignment explanation
Indices: 9129--9189 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
9119 GTTAAATATA
9129 ATAAATATTTAATAAAAAT
1 ATAAAT-TTTAATAAAAAT
* *
9148 ATAAATTTGATTAAATAAT
1 ATAAATTTTAATAAA-AAT
* *
9167 ATAATTTTTAATATAAAT
1 ATAAATTTTAATAAAAAT
*
9185 TTAAA
1 ATAAA
9190 GGTTAAAAGA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
18 13 0.39
19 20 0.61
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
ATAAATTTTAATAAAAAT
Found at i:9514 original size:17 final size:16
Alignment explanation
Indices: 9489--9524 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
9479 GAATAACATA
9489 TAAATTTAAATAATTT
1 TAAATTTAAATAATTT
*
9505 TAAATATTAATTAATTT
1 TAAAT-TTAAATAATTT
9522 TAA
1 TAA
9525 TTTTTACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAAATTTAAATAATTT
Found at i:9536 original size:17 final size:16
Alignment explanation
Indices: 9489--9537 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
9479 GAATAACATA
*
9489 TAAATTTAAATAATTT
1 TAAATTTTAATAATTT
*
9505 TAAATATTAATTAATTT
1 TAAATTTTAA-TAATTT
*
9522 TAATTTTTACATAATT
1 TAAATTTTA-ATAATT
9538 GAATTAGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 8 0.30
17 18 0.67
18 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
TAAATTTTAATAATTT
Found at i:11229 original size:34 final size:34
Alignment explanation
Indices: 11159--11239 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
11149 TGGAATTTAC
* * *
11159 TCAAACTCTATTTAGGTATAAGGTATGAATTTAT
1 TCAAACTCTATTTAAGTATAAGATATGAATTAAT
* *
11193 TCAAACTCTATTTAAGTATAAGATTTGAGTTAAT
1 TCAAACTCTATTTAAGTATAAGATATGAATTAAT
11227 TCAAACTC-ATTTA
1 TCAAACTCTATTTA
11240 TGTTTGATCC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 5 0.12
34 37 0.88
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (34 bp):
TCAAACTCTATTTAAGTATAAGATATGAATTAAT
Found at i:12395 original size:17 final size:16
Alignment explanation
Indices: 12353--12404 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
12343 ATTAGACTTT
12353 TATTACCTATAATA-A
1 TATTACCTATAATATA
**
12368 TATTATATATATATATA
1 TATTACCTATA-ATATA
12385 TATTACCTATAATAATA
1 TATTACCTATAAT-ATA
12402 TAT
1 TAT
12405 GTAATTGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 9 0.30
16 5 0.17
17 16 0.53
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (16 bp):
TATTACCTATAATATA
Found at i:18730 original size:22 final size:22
Alignment explanation
Indices: 18688--18740 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
18678 CTATATATTT
*
18688 AATATTTTTAAAAGTATTTTAC
1 AATATTTTTAAAAGTAATTTAC
*
18710 AATATTATTTGAAA-TAATTT--
1 AATATT-TTTAAAAGTAATTTAC
18730 AATATTTTTAA
1 AATATTTTTAA
18741 TTGATATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 4 0.15
20 6 0.22
22 11 0.41
23 6 0.22
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (22 bp):
AATATTTTTAAAAGTAATTTAC
Found at i:19160 original size:28 final size:28
Alignment explanation
Indices: 19104--19163 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
19094 TCAAATTTTT
*** *
19104 ATTTAATAATAAAAATATTTTAATTTTA
1 ATTTAATAATAAAAATATAAAAATATTA
*
19132 ATTTAATTATAAAAATATAAAAATATTA
1 ATTTAATAATAAAAATATAAAAATATTA
19160 ATTT
1 ATTT
19164 TTTAAATAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTTAATAATAAAAATATAAAAATATTA
Found at i:22230 original size:28 final size:28
Alignment explanation
Indices: 22190--22245 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
22180 ATAGGGTTAA
22190 GTATGTATTAACACTAATTCACAAACTT
1 GTATGTATTAACACTAATTCACAAACTT
22218 GTATGTATTAACACTAATTCACAAACTT
1 GTATGTATTAACACTAATTCACAAACTT
22246 ACTCCAGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (28 bp):
GTATGTATTAACACTAATTCACAAACTT
Found at i:22362 original size:3 final size:3
Alignment explanation
Indices: 22354--22391 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
22344 GCAGTGTTTT
22354 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
22392 GTGAGTCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:22745 original size:17 final size:17
Alignment explanation
Indices: 22707--22752 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
22697 ATTTAGATTT
*
22707 AATAAATATTAAATAAA
1 AATATATATTAAATAAA
* *
22724 AATATATATTTAATATA
1 AATATATATTAAATAAA
22741 AATATAT-TTAAA
1 AATATATATTAAA
22753 ATTTTAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATATATATTAAATAAA
Found at i:23285 original size:3 final size:3
Alignment explanation
Indices: 23271--23318 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
23261 TATTTTTGAA
* *
23271 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23319 TAGTTTATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:23451 original size:3 final size:3
Alignment explanation
Indices: 23443--23476 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
23433 ATCTTAATAT
*
23443 TTA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23477 ATAATCAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:31203 original size:31 final size:29
Alignment explanation
Indices: 31143--31204 Score: 79
Period size: 31 Copynumber: 2.1 Consensus size: 29
31133 GAGTAGAGCT
* *
31143 GTCTATGATAAGGTCTAAGGTCGGTCGTG
1 GTCTATGATAAGGTCTAAGATAGGTCGTG
*
31172 GTCTATGGGTAAGGTCTAAAGATAGGTCGTG
1 GTCTAT-GATAAGGTCT-AAGATAGGTCGTG
31203 GT
1 GT
31205 TTGAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 6 0.21
30 9 0.32
31 13 0.46
ACGTcount: A:0.23, C:0.11, G:0.35, T:0.31
Consensus pattern (29 bp):
GTCTATGATAAGGTCTAAGATAGGTCGTG
Found at i:36133 original size:22 final size:21
Alignment explanation
Indices: 36108--36158 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
36098 ATATTTATAA
*
36108 ATATTTAA-TTAAATTAATAATT
1 ATATTAAATTTAAATT-A-AATT
36130 ATA-TAAATTTAAATTAAATT
1 ATATTAAATTTAAATTAAATT
36150 ATATTAAAT
1 ATATTAAAT
36159 AATAATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 7 0.27
21 9 0.35
22 10 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTAAATTTAAATTAAATT
Found at i:36165 original size:27 final size:26
Alignment explanation
Indices: 36110--36177 Score: 66
Period size: 29 Copynumber: 2.5 Consensus size: 26
36100 ATTTATAAAT
*
36110 ATTTAATTAAATTAATAATTATATAA
1 ATTTAATTAAATTAATAAATATATAA
36136 ATTTAAATTAAATTATATTAAATA-ATAA
1 ATTT-AATTAAATTA-A-TAAATATATAA
*
36164 TTATTTATTTAAAT
1 --ATTTAATTAAAT
36178 ATTTTTTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
26 4 0.11
27 10 0.29
28 5 0.14
29 12 0.34
30 4 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
ATTTAATTAAATTAATAAATATATAA
Found at i:36171 original size:20 final size:20
Alignment explanation
Indices: 36104--36178 Score: 56
Period size: 20 Copynumber: 4.0 Consensus size: 20
36094 TTTTATATTT
*
36104 ATAAATATTTA-ATTAAATTA
1 ATAATTATTTATATTAAA-TA
* *
36124 ATAATTATATAAATTTAAAT-
1 ATAATTATTTATA-TTAAATA
36144 -TAA--A-TTATATTAAATA
1 ATAATTATTTATATTAAATA
36160 ATAATTATTTAT-TTAAATA
1 ATAATTATTTATATTAAATA
36179 TTTTTTATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 15
0.70 0.06 0.24
Matches are distributed among these distances:
15 6 0.14
16 3 0.07
17 4 0.09
19 11 0.25
20 13 0.30
21 2 0.05
22 5 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAATTATTTATATTAAATA
Found at i:36204 original size:17 final size:18
Alignment explanation
Indices: 36170--36207 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
36160 ATAATTATTT
*
36170 ATTTAAATATTTTTTATA
1 ATTTAAATATTTTATATA
36188 ATTTAAA-ATTTTATATA
1 ATTTAAATATTTTATATA
36205 ATT
1 ATT
36208 GAATTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTAAATATTTTATATA
Found at i:37598 original size:23 final size:23
Alignment explanation
Indices: 37572--37628 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
37562 TCATATTCAT
*
37572 ATTATTTTTTATATTGTGTTTTA
1 ATTATTCTTTATATTGTGTTTTA
*
37595 ATTATACTTTATATTGTGTTTTA
1 ATTATTCTTTATATTGTGTTTTA
37618 ATTATTCTTTA
1 ATTATTCTTTA
37629 CTTTATCTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.25, C:0.04, G:0.07, T:0.65
Consensus pattern (23 bp):
ATTATTCTTTATATTGTGTTTTA
Found at i:37961 original size:86 final size:87
Alignment explanation
Indices: 37842--38019 Score: 288
Period size: 86 Copynumber: 2.1 Consensus size: 87
37832 CGTGTTTTTA
* * * *
37842 TTATTTTTGTTGATACAAAGTATTTTAAATTTATATGAATATTTATATATTAATAATTCGTTTTA
1 TTATTTTTGTTGACACAAAGTATTTTAAATTTATATAAATATTTATACATTAATAATTCATTTTA
*
37907 TATAAATATTTATATGTTTGTG
66 TATAAATATTTATATGTTCGTG
*
37929 TTATTTTTGTTGGCAC-AAGTATTTTAAATTTATATAAATATTTATACATTAATAATTCATTTTA
1 TTATTTTTGTTGACACAAAGTATTTTAAATTTATATAAATATTTATACATTAATAATTCATTTTA
37993 TATAAATATTTATATGTTCGTG
66 TATAAATATTTATATGTTCGTG
38015 -TATTT
1 TTATTT
38020 CTATCATGTT
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
85 5 0.06
86 66 0.78
87 14 0.16
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.53
Consensus pattern (87 bp):
TTATTTTTGTTGACACAAAGTATTTTAAATTTATATAAATATTTATACATTAATAATTCATTTTA
TATAAATATTTATATGTTCGTG
Found at i:39360 original size:17 final size:18
Alignment explanation
Indices: 39338--39375 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
39328 CTTTAAATTC
* *
39338 AATTACATAACAT-TTTA
1 AATTACAAAAAATATTTA
39355 AATTACAAAAAATATTTA
1 AATTACAAAAAATATTTA
39373 AAT
1 AAT
39376 AAATAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTACAAAAAATATTTA
Found at i:40942 original size:20 final size:21
Alignment explanation
Indices: 40919--40960 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
40909 TTTTATTTAT
*
40919 ATAATTATTTTTAT-TTTAAA
1 ATAATTATTATTATATTTAAA
40939 ATAATTATTATTATATTTAAA
1 ATAATTATTATTATATTTAAA
40960 A
1 A
40961 AATAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATAATTATTATTATATTTAAA
Found at i:40962 original size:23 final size:20
Alignment explanation
Indices: 40919--40966 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 20
40909 TTTTATTTAT
*
40919 ATAATTATTTTTATTTTAAA
1 ATAATTATTTTTATTTAAAA
40939 ATAATTATTATTATATTTAAAAA
1 ATAATTATT-TT-TATTT-AAAA
40962 ATAAT
1 ATAAT
40967 AATACATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 2 0.08
22 5 0.21
23 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATAATTATTTTTATTTAAAA
Found at i:43850 original size:24 final size:24
Alignment explanation
Indices: 43800--43877 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
43790 TGTAAGCTTA
*
43800 ATATTTTTATTAATATTAATATTAAT
1 ATATTTTTA-TAAT-TAAATATTAAT
43826 ATATTTTTATAATTAAAT-TTAAAT
1 ATATTTTTATAATTAAATATT-AAT
* *
43850 AAATTTTTATTATTAAA-A-TAAT
1 ATATTTTTATAATTAAATATTAAT
43872 A-ATTTT
1 ATATTTT
43878 GATTAAATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
21 5 0.11
22 4 0.09
23 3 0.06
24 22 0.47
25 4 0.09
26 9 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATATTTTTATAATTAAATATTAAT
Found at i:51326 original size:16 final size:16
Alignment explanation
Indices: 51290--51327 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
51280 ACTTTCCCAG
51290 AAAAAATAAAATAAAA
1 AAAAAATAAAATAAAA
*
51306 TAAAAATAAAA-AGAAA
1 AAAAAATAAAATA-AAA
51322 AAAAAA
1 AAAAAA
51328 AGAAGAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 1 0.05
16 18 0.95
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAAAATAAAATAAAA
Found at i:52238 original size:21 final size:21
Alignment explanation
Indices: 52209--52261 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
52199 AATATGTAAA
52209 TTTTT-AAAAAGTGAAGAATT
1 TTTTTAAAAAAGTGAAGAATT
* * *
52229 TTTTTAAAAAATTTAATAATT
1 TTTTTAAAAAAGTGAAGAATT
52250 TTTTTAATAAAA
1 TTTTTAA-AAAA
52262 AGTACGGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 5 0.18
21 19 0.68
22 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (21 bp):
TTTTTAAAAAAGTGAAGAATT
Found at i:60102 original size:2 final size:2
Alignment explanation
Indices: 60097--60122 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
60087 TATGTGTGTG
60097 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
60123 ACACGTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62234 original size:2 final size:2
Alignment explanation
Indices: 62227--62265 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
62217 TGCAGAACTA
62227 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
62266 AGATCCAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:62812 original size:12 final size:12
Alignment explanation
Indices: 62795--62847 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
62785 TACTTTTTTG
*
62795 TTTTGATATTAA
1 TTTTGATTTTAA
62807 TTTTGATTTTATTA
1 TTTTGATTTTA--A
* *
62821 TTTTAATTTTAC
1 TTTTGATTTTAA
62833 TTTTGATTTTAA
1 TTTTGATTTTAA
62845 TTT
1 TTT
62848 GAAAATTACT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
12 23 0.68
14 11 0.32
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.68
Consensus pattern (12 bp):
TTTTGATTTTAA
Found at i:62816 original size:18 final size:18
Alignment explanation
Indices: 62790--62847 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
62780 TCTAGTACTT
62790 TTTTG-TTTTGATATTAA
1 TTTTGATTTTGATATTAA
62807 TTTTGATTTT-ATTATTTTAA
1 TTTTGATTTTGA-TA--TTAA
*
62827 TTTT-ACTTTTGATTTTAA
1 TTTTGA-TTTTGATATTAA
62845 TTT
1 TTT
62848 GAAAATTACT
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
17 6 0.18
18 13 0.38
19 1 0.03
20 13 0.38
21 1 0.03
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (18 bp):
TTTTGATTTTGATATTAA
Found at i:63578 original size:35 final size:35
Alignment explanation
Indices: 63513--63580 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
63503 AAAAAACTAA
* *
63513 ATTAATTAATTTTAATATTAAAATAGATTAAATAG
1 ATTAATTAATTTTAAAATAAAAATAGATTAAATAG
63548 ATTATATTAATTTTAAAATAAAAATA-ATTAAAT
1 ATTA-ATTAATTTTAAAATAAAAATAGATTAAAT
63581 TGATATTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 11 0.37
36 19 0.63
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (35 bp):
ATTAATTAATTTTAAAATAAAAATAGATTAAATAG
Found at i:63667 original size:14 final size:14
Alignment explanation
Indices: 63637--63665 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
63627 ATTTTAAATA
63637 TTAATTTAATTAAT
1 TTAATTTAATTAAT
63651 TTAATTT-ATTAAT
1 TTAATTTAATTAAT
63664 TT
1 TT
63666 TATATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTAATTTAATTAAT
Found at i:63705 original size:43 final size:47
Alignment explanation
Indices: 63658--63748 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 47
63648 AATTTAATTT
* *
63658 ATTAATTTTATATTTT-AA-TAAT-AAAAATT-AATCAAATTAATCA
1 ATTAAATTAATATTTTAAATTAATGAAAAATTAAATCAAATTAATCA
* *
63701 ATTAAATTAATATTTTAAATTAATGAAAATTTAAATTAAATTAATCA
1 ATTAAATTAATATTTTAAATTAATGAAAAATTAAATCAAATTAATCA
63748 A
1 A
63749 ATTTATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
43 14 0.35
44 2 0.05
45 4 0.10
46 6 0.15
47 14 0.35
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (47 bp):
ATTAAATTAATATTTTAAATTAATGAAAAATTAAATCAAATTAATCA
Found at i:63741 original size:21 final size:23
Alignment explanation
Indices: 63691--63765 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 23
63681 AAAATTAATC
* *
63691 AAATTAATCAATTAAATTAATATTTT
1 AAATTAATCAAATATATTAA-A--TT
*
63717 AAATTAATGAAA-AT-TTAAATT
1 AAATTAATCAAATATATTAAATT
*
63738 AAATTAATCAAATTTATTAAATT
1 AAATTAATCAAATATATTAAATT
63761 AAATT
1 AAATT
63766 TAATTAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
21 13 0.31
22 1 0.02
23 13 0.31
24 4 0.10
25 1 0.02
26 10 0.24
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (23 bp):
AAATTAATCAAATATATTAAATT
Found at i:63774 original size:14 final size:14
Alignment explanation
Indices: 63731--63774 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
63721 TAATGAAAAT
*
63731 TTAAATTAAATTAA
1 TTAAATTTAATTAA
*
63745 TCAAATTT-ATTAAA
1 TTAAATTTAATT-AA
63759 TTAAATTTAATTAA
1 TTAAATTTAATTAA
63773 TT
1 TT
63775 TATACTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 3 0.12
14 19 0.76
15 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAAATTTAATTAA
Found at i:63776 original size:9 final size:9
Alignment explanation
Indices: 63682--63774 Score: 57
Period size: 9 Copynumber: 10.0 Consensus size: 9
63672 TTAATAATAA
*
63682 AAATTAATC
1 AAATTAATT
63691 AAATTAA-T
1 AAATTAATT
*
63699 CAATTAAATT
1 AAATT-AATT
63709 AATATT--TT
1 AA-ATTAATT
*
63717 AAATTAATGA
1 AAATTAAT-T
63727 AAATTTAAATT
1 AAA-TT-AATT
*
63738 AAATTAATC
1 AAATTAATT
*
63747 AAATTTATT
1 AAATTAATT
63756 AAATTAAATT
1 AAATT-AATT
*
63766 TAATTAATT
1 AAATTAATT
63775 TATACTATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
7 3 0.05
8 8 0.12
9 29 0.45
10 14 0.22
11 8 0.12
12 3 0.05
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (9 bp):
AAATTAATT
Found at i:64939 original size:2 final size:2
Alignment explanation
Indices: 64932--64967 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
64922 GTTTGACCTT
64932 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
64968 ACCTTTTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:72518 original size:2 final size:2
Alignment explanation
Indices: 72469--72500 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
72459 ATGGTTTTGC
72469 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72501 GTTTATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:74936 original size:21 final size:21
Alignment explanation
Indices: 74912--74974 Score: 54
Period size: 23 Copynumber: 2.9 Consensus size: 21
74902 AAAGAATTTC
74912 GAATTTTTAAATTTTTAAGTT
1 GAATTTTTAAATTTTTAAGTT
* * *
74933 GAATATTTGAATATTTTTTATTT
1 GAAT-TTTTAA-ATTTTTAAGTT
* *
74956 AAATTATTTTAATTTTTAA
1 GAATT-TTTAAATTTTTAA
74975 TTAAATTAGA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
21 4 0.12
22 13 0.41
23 15 0.47
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (21 bp):
GAATTTTTAAATTTTTAAGTT
Found at i:78171 original size:9 final size:9
Alignment explanation
Indices: 78140--78176 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
78130 AAAATTACTT
78140 TAAAA-ATA
1 TAAAATATA
78148 TAAAAT-TA
1 TAAAATATA
*
78156 AAAAATATA
1 TAAAATATA
78165 TAAAATATA
1 TAAAATATA
78174 TAA
1 TAA
78177 TTAAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 12 0.48
9 13 0.52
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
TAAAATATA
Found at i:86739 original size:18 final size:17
Alignment explanation
Indices: 86706--86768 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 17
86696 GTTTAAGATA
86706 TTATATATTTATATAAATT
1 TTATATA-TTA-ATAAATT
86725 TTGATATATTAAT-AATT
1 TT-ATATATTAATAAATT
86742 TATATTATATT--TAAATT
1 T-TA-TATATTAATAAATT
86759 TTAATATATT
1 TT-ATATATT
86769 TATATATTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
16 8 0.21
17 12 0.31
18 9 0.23
19 5 0.13
20 5 0.13
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TTATATATTAATAAATT
Found at i:86760 original size:34 final size:35
Alignment explanation
Indices: 86698--86789 Score: 116
Period size: 34 Copynumber: 2.7 Consensus size: 35
86688 ATAATTATGT
* * *
86698 TTAAGATATTATATATT-TATATAAATTTTGATATA
1 TTAATATATT-TATATTATATTTAAATTTTAATATA
86733 TTAATA-ATTTATATTATATTTAAATTTTAATATA
1 TTAATATATTTATATTATATTTAAATTTTAATATA
* *
86767 TTTATATATTTATTTTATATTTA
1 TTAATATATTTATATTATATTTA
86790 TTTTATTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
33 6 0.12
34 24 0.48
35 20 0.40
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (35 bp):
TTAATATATTTATATTATATTTAAATTTTAATATA
Found at i:86768 original size:16 final size:16
Alignment explanation
Indices: 86719--86770 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
86709 TATATTTATA
*
86719 TAAATTTTGATATATT
1 TAAATTTTAATATATT
* *
86735 AATAATTTATATTATATT
1 TA-AATTT-TAATATATT
86753 TAAATTTTAATATATT
1 TAAATTTTAATATATT
86769 TA
1 TA
86771 TATATTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 11 0.38
17 10 0.34
18 8 0.28
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
TAAATTTTAATATATT
Found at i:86777 original size:18 final size:17
Alignment explanation
Indices: 86721--86777 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
86711 TATTTATATA
* *
86721 AATTTTGATATATTAAT
1 AATTTTAATATATTTAT
*
86738 AATTTATATTATATTTA-
1 AATTT-TAATATATTTAT
86755 AATTTTAATATATTTAT
1 AATTTTAATATATTTAT
86772 ATATTT
1 A-ATTT
86778 ATTTTATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
16 10 0.30
17 11 0.33
18 12 0.36
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
AATTTTAATATATTTAT
Found at i:86787 original size:11 final size:11
Alignment explanation
Indices: 86739--86795 Score: 62
Period size: 11 Copynumber: 5.0 Consensus size: 11
86729 TATATTAATA
*
86739 ATTTATATTAT
1 ATTTATTTTAT
86750 ATTTAAATTTTA-
1 ATTT--ATTTTAT
*
86762 ATATATTTATAT
1 ATTTATTT-TAT
86774 ATTTATTTTAT
1 ATTTATTTTAT
86785 ATTTATTTTAT
1 ATTTATTTTAT
86796 TTTTCACATC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 4 0.10
11 20 0.51
12 10 0.26
13 5 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTATTTTAT
Found at i:86931 original size:31 final size:31
Alignment explanation
Indices: 86893--86969 Score: 95
Period size: 30 Copynumber: 2.5 Consensus size: 31
86883 TGCACTATTG
*
86893 AAAAAATTAATTATAAAAATT-TTATTTTTAA
1 AAAAAATTAATTATAAAAATTATT-TTTATAA
*
86924 AAAAAATTAATTA-AGAAATTATTTTTATAA
1 AAAAAATTAATTATAAAAATTATTTTTATAA
86954 AAAAATATGTAATTAT
1 AAAAA-AT-TAATTAT
86970 TTTTAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
30 17 0.43
31 17 0.43
32 6 0.15
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (31 bp):
AAAAAATTAATTATAAAAATTATTTTTATAA
Found at i:87063 original size:2 final size:2
Alignment explanation
Indices: 87056--87089 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
87046 GTGATAGATT
87056 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87090 TTCCGCATCC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:87320 original size:49 final size:49
Alignment explanation
Indices: 87255--87365 Score: 126
Period size: 49 Copynumber: 2.3 Consensus size: 49
87245 TTTTTATTTG
87255 TATATATTT-TA--ATATTTTAA-TAATTTATATTATATAAATTT-TAAAA
1 TATATATTTATATTATATTTTAACTAATTTAT-TTATAT-AATTTATAAAA
* *
87301 TATATATTTATATTATATTTTAACTATTTTATTTATATTATTTATAAAA
1 TATATATTTATATTATATTTTAACTAATTTATTTATATAATTTATAAAA
*
87350 T-TATATTAAATATTAT
1 TATATATT-TATATTAT
87366 CATATCTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
46 9 0.16
47 2 0.04
48 10 0.18
49 28 0.50
50 7 0.12
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (49 bp):
TATATATTTATATTATATTTTAACTAATTTATTTATATAATTTATAAAA
Found at i:88716 original size:57 final size:57
Alignment explanation
Indices: 88623--88737 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
88613 ATTATAATTG
88623 ATCGAAATAATTATTTTATATTCACAATCACAATAAAATATGATACGATAAAAAAAT
1 ATCGAAATAATTATTTTATATTCACAATCACAATAAAATATGATACGATAAAAAAAT
* **
88680 ATCGTAATAATTATTTTATATTCGTAATCACAATAAAATATGATACGATAAAAAAAT
1 ATCGAAATAATTATTTTATATTCACAATCACAATAAAATATGATACGATAAAAAAAT
88737 A
1 A
88738 GTTTATAACT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (57 bp):
ATCGAAATAATTATTTTATATTCACAATCACAATAAAATATGATACGATAAAAAAAT
Found at i:89459 original size:342 final size:342
Alignment explanation
Indices: 88834--89503 Score: 1259
Period size: 342 Copynumber: 2.0 Consensus size: 342
88824 CTCTCTGGAA
88834 GTCGATTACATCAACCAAATTGTTAATATTCTTTCATACGGCACTGTAATTAACGACCATCCTCA
1 GTCGATTACATCAACCAAATTGTTAATATTCTTTCATACGGCACTGTAATTAACGACCATCCTCA
*
88899 TTGCCAGGTACATCACAAACCGTACCATTTATGTGTCTATATTGGACAGCCAGCATTTTAGGTTG
66 TTGCCAGGTACATCACAAACCCTACCATTTATGTGTCTATATTGGACAGCCAGCATTTTAGGTTG
88964 AAAATAACTTCCTTATGGCAGCACCAAGCAATCTGTTGGACATCAGGTTTGGTAAGCATCATGTG
131 AAAATAACTTCCTTATGGCAGCACCAAGCAATCTGTTGGACATCAGGTTTGGTAAGCATCATGTG
*
89029 AATTTCAGCAACTTTATCAAGGCAATGTACTTTTTGAAGTGTACCATTATGCTATCTCTGTTTCT
196 AATTTCAGCAACTTTATCAAGGAAATGTACTTTTTGAAGTGTACCATTATGCTATCTCTGTTTCT
* *
89094 GTATTGGATTAGCTCTGCCAATTCTTTGCATGAAACGTGCCAAATAGAAAGAGCTCTGTCTCTTG
261 GTATTGGATTAGCTCTGCCAATTCCTTGCATGAAACGTGCCAAATAGAAAGAGCTATGTCTCTTG
89159 CCAATATTCTGTATGGG
326 CCAATATTCTGTATGGG
*
89176 GTCGATTACATCAACCCAATTGTTAATATTCTTTCATACGGCACTGTAATTAACGACCATCCTCA
1 GTCGATTACATCAACCAAATTGTTAATATTCTTTCATACGGCACTGTAATTAACGACCATCCTCA
*
89241 TTGCTAGGTACATCACAAACCCTACCATTTATGTGTCTATATTGGACAGCCAGCATTTTAGGTTG
66 TTGCCAGGTACATCACAAACCCTACCATTTATGTGTCTATATTGGACAGCCAGCATTTTAGGTTG
89306 AAAATAACTTCCTTATGGCAGCACCAAGCAATCTGTTGGACATCAGGTTTGGTAAGCATCATGTG
131 AAAATAACTTCCTTATGGCAGCACCAAGCAATCTGTTGGACATCAGGTTTGGTAAGCATCATGTG
**
89371 AATTTCAGCAACTTTATCAAGGAAATGTACTTTTTGCGGTGTACCATTATGCTATCTCTGTTTCT
196 AATTTCAGCAACTTTATCAAGGAAATGTACTTTTTGAAGTGTACCATTATGCTATCTCTGTTTCT
*
89436 GTATTGGATTAGCTCTGCCAATTCCTTGCATGAAACGTGCCTAATAGAAAGAGCTATGTCTCTTG
261 GTATTGGATTAGCTCTGCCAATTCCTTGCATGAAACGTGCCAAATAGAAAGAGCTATGTCTCTTG
89501 CCA
326 CCA
89504 GGCACTTGGG
Statistics
Matches: 319, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
342 319 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (342 bp):
GTCGATTACATCAACCAAATTGTTAATATTCTTTCATACGGCACTGTAATTAACGACCATCCTCA
TTGCCAGGTACATCACAAACCCTACCATTTATGTGTCTATATTGGACAGCCAGCATTTTAGGTTG
AAAATAACTTCCTTATGGCAGCACCAAGCAATCTGTTGGACATCAGGTTTGGTAAGCATCATGTG
AATTTCAGCAACTTTATCAAGGAAATGTACTTTTTGAAGTGTACCATTATGCTATCTCTGTTTCT
GTATTGGATTAGCTCTGCCAATTCCTTGCATGAAACGTGCCAAATAGAAAGAGCTATGTCTCTTG
CCAATATTCTGTATGGG
Found at i:89989 original size:2 final size:2
Alignment explanation
Indices: 89982--90022 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
89972 GAGTAGGCTC
89982 TA TA TA TA 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 TA TA TA TA T
90023 GCTATTGCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:90066 original size:17 final size:16
Alignment explanation
Indices: 90038--90086 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
90028 TGCTAACTAG
*
90038 TTTTATATTTATATATT
1 TTTTATA-TTATATATA
*
90055 TTTTCATATTATAAATA
1 TTTT-ATATTATATATA
90072 TTTTATATT-TATATA
1 TTTTATATTATATATA
90087 AATATTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 5 0.18
16 5 0.18
17 15 0.54
18 3 0.11
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTATATTATATATA
Found at i:90437 original size:15 final size:15
Alignment explanation
Indices: 90419--90461 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
90409 AAGTATTCAA
*
90419 AAATATTAATATTTT
1 AAATAATAATATTTT
* *
90434 AAATAGTAATATTCT
1 AAATAATAATATTTT
90449 -AATAATAATATTT
1 AAATAATAATATTT
90462 AATACTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AAATAATAATATTTT
Found at i:90473 original size:29 final size:27
Alignment explanation
Indices: 90450--90500 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
90440 TAATATTCTA
*
90450 ATAATAATATTTAATAC-TAAAATATT
1 ATAATAATATTAAATACTTAAAATATT
*
90476 ATATTAATATTAAATACTTAAAATA
1 ATAATAATATTAAATACTTAAAATA
90501 ATACCATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (27 bp):
ATAATAATATTAAATACTTAAAATATT
Found at i:90482 original size:19 final size:18
Alignment explanation
Indices: 90447--90489 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
90437 TAGTAATATT
90447 CTAATAATAATATTTAATA
1 CTAA-AATAATATTTAATA
*
90466 CTAAAATATTATATTAATA
1 CTAAAATAATAT-TTAATA
*
90485 TTAAA
1 CTAAA
90490 TACTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (18 bp):
CTAAAATAATATTTAATA
Found at i:90604 original size:32 final size:31
Alignment explanation
Indices: 90535--90616 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
90525 CTTAAAAGTT
* * *
90535 AATATTTAAAATATTATAATAATTATTAAAA
1 AATATTTATATTAATATAATAATTATTAAAA
* *
90566 AATATTTCTATTAATATAATTATTATTAAAA
1 AATATTTATATTAATATAATAATTATTAAAA
90597 AATTATTTATATTAATATAA
1 AA-TATTTATATTAATATAA
90617 CTAGTTTTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 28 0.64
32 16 0.36
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (31 bp):
AATATTTATATTAATATAATAATTATTAAAA
Found at i:90800 original size:2 final size:2
Alignment explanation
Indices: 90793--90818 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
90783 GAAAATCTTA
90793 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
90819 CTATCTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91049 original size:16 final size:16
Alignment explanation
Indices: 91011--91047 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
91001 ATTAAATTAC
91011 TTTTA-TTA-TTATAT
1 TTTTATTTATTTATAT
91025 TTTTATTTATTTATA-
1 TTTTATTTATTTATAT
91040 TTTTATTT
1 TTTTATTT
91048 TAAATTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 11 0.52
16 5 0.24
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTATTTATTTATAT
Found at i:92678 original size:27 final size:27
Alignment explanation
Indices: 92648--92725 Score: 63
Period size: 28 Copynumber: 2.9 Consensus size: 27
92638 TTTTTAAAAA
92648 AATAATATTTTAAATTATT-ATATATTT
1 AATAATATTTTAAATTATTAATA-ATTT
* *
92675 AATATAAATTTTATA-TATTAATAATTT
1 AATA-ATATTTTAAATTATTAATAATTT
* *
92702 -ATATTATATTAAATTTATGTAATA
1 AATAATATTTTAAA-TTAT-TAATA
92726 TATATTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
25 6 0.15
26 3 0.08
27 15 0.38
28 16 0.40
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (27 bp):
AATAATATTTTAAATTATTAATAATTT
Found at i:92699 original size:22 final size:21
Alignment explanation
Indices: 92658--92697 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
92648 AATAATATTT
92658 TAAATTATTATATATTTAATA
1 TAAATTATTATATATTTAATA
92679 TAAATT-TTATATA-TTAATA
1 TAAATTATTATATATTTAATA
92698 ATTTATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 7 0.37
21 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TAAATTATTATATATTTAATA
Found at i:93003 original size:14 final size:15
Alignment explanation
Indices: 92981--93013 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
92971 TAGTATTTGA
*
92981 TATTTAAATTT-TTT
1 TATTGAAATTTATTT
92995 TATTGAAATTTATTT
1 TATTGAAATTTATTT
93010 TATT
1 TATT
93014 TATATGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TATTGAAATTTATTT
Found at i:93436 original size:23 final size:22
Alignment explanation
Indices: 93402--93444 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
93392 ATATCTCAAA
*
93402 TATTAATTTTAAATTTTAAATT
1 TATTAATATTAAATTTTAAATT
*
93424 TATTGAATATTAATTTTTAAA
1 TATT-AATATTAAATTTTAAA
93445 AATAATTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTAATATTAAATTTTAAATT
Found at i:96309 original size:3 final size:3
Alignment explanation
Indices: 96301--96338 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
96291 AAATTAAAAT
96301 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
96339 TCTTAAAGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:96963 original size:33 final size:34
Alignment explanation
Indices: 96910--96981 Score: 101
Period size: 33 Copynumber: 2.1 Consensus size: 34
96900 CAATTTAAAT
*
96910 TAAATCTAAGTTAAAATTAAAAATAATCTGAATA
1 TAAATCTAACTTAAAATTAAAAATAATCTGAATA
* * *
96944 TAAAT-TAACTTAAATTTAAAAATTATCTGAATT
1 TAAATCTAACTTAAAATTAAAAATAATCTGAATA
96977 TAAAT
1 TAAAT
96982 AGACTCGACT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 29 0.85
34 5 0.15
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.38
Consensus pattern (34 bp):
TAAATCTAACTTAAAATTAAAAATAATCTGAATA
Found at i:96978 original size:17 final size:17
Alignment explanation
Indices: 96926--96980 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
96916 TAAGTTAAAA
*
96926 TTAAAAATAATCTGAA-
1 TTAAAAATTATCTGAAT
* * *
96942 -TATAAATTAACTTAAAT
1 TTAAAAATTATC-TGAAT
96959 TTAAAAATTATCTGAAT
1 TTAAAAATTATCTGAAT
96976 TTAAA
1 TTAAA
96981 TAGACTCGAC
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
15 8 0.28
16 3 0.10
17 9 0.31
18 9 0.31
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (17 bp):
TTAAAAATTATCTGAAT
Found at i:98828 original size:15 final size:16
Alignment explanation
Indices: 98810--98842 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
98800 TTAAAAGATA
98810 TAAAATCATAAAT-TT
1 TAAAATCATAAATATT
*
98825 TAAATTCATAAATATT
1 TAAAATCATAAATATT
98841 TA
1 TA
98843 TTAGTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAATCATAAATATT
Found at i:100839 original size:13 final size:13
Alignment explanation
Indices: 100821--100845 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100811 ATACTTATAA
100821 TTTAATAATTTTT
1 TTTAATAATTTTT
100834 TTTAATAATTTT
1 TTTAATAATTTT
100846 ACGAGCAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTAATAATTTTT
Found at i:101465 original size:3 final size:3
Alignment explanation
Indices: 101457--101492 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
101447 TTGCAAAGTG
101457 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
101493 TTACTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:101748 original size:12 final size:12
Alignment explanation
Indices: 101731--101758 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
101721 GGTGTTTTAT
101731 ATTTTTTATATA
1 ATTTTTTATATA
101743 ATTTTTTATATA
1 ATTTTTTATATA
101755 ATTT
1 ATTT
101759 ATATTTATTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTTTTATATA
Found at i:102564 original size:21 final size:22
Alignment explanation
Indices: 102540--102593 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
102530 TTTTTAAATT
102540 TTATAATTTATATATAT-TATA
1 TTATAATTTATATATATATATA
*
102561 TTAT-ATTTATATATTTATATA
1 TTATAATTTATATATATATATA
102582 TTATAA-TTATAT
1 TTATAATTTATAT
102594 TTAAAATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 11 0.37
21 18 0.60
22 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATAATTTATATATATATATA
Found at i:102608 original size:27 final size:26
Alignment explanation
Indices: 102539--102617 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 26
102529 ATTTTTAAAT
*
102539 TTTATAATTTATATATATTATATTATA
1 TTTA-AATATATATATATTATATTATA
* *
102566 TTTATATATTTATATATTATAATTATA
1 TTTAAATATATATATATTAT-ATTATA
*
102593 TTTAAA-ATAATCTATATTTATATTA
1 TTTAAATAT-ATATATA-TTATATTA
102618 ATAATTACAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 15 0.35
27 24 0.56
28 4 0.09
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (26 bp):
TTTAAATATATATATATTATATTATA
Found at i:102667 original size:15 final size:15
Alignment explanation
Indices: 102541--102676 Score: 77
Period size: 15 Copynumber: 9.1 Consensus size: 15
102531 TTTTAAATTT
* *
102541 TATAATTTATATATAT
1 TATAA-TTATATTTAA
102557 TAT-ATTATATTT-A
1 TATAATTATATTTAA
* *
102570 TAT-ATT-TATATAT
1 TATAATTATATTTAA
102583 TATAATTATATTTAA
1 TATAATTATATTTAA
*
102598 AATAATCTATATTTATA
1 TATAAT-TATATTTA-A
* **
102615 TTAATAATTACATAAAA
1 -T-ATAATTATATTTAA
* *
102632 TTTAA-AATATTT-A
1 TATAATTATATTTAA
102645 TATAATTATATTTAA
1 TATAATTATATTTAA
* *
102660 TATTATTAAATTTAA
1 TATAATTATATTTAA
102675 TA
1 TA
102677 ATTTCACACT
Statistics
Matches: 91, Mismatches: 20, Indels: 19
0.70 0.15 0.15
Matches are distributed among these distances:
12 4 0.04
13 14 0.15
14 19 0.21
15 30 0.33
16 12 0.13
17 2 0.02
18 5 0.05
19 5 0.05
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (15 bp):
TATAATTATATTTAA
Found at i:106201 original size:47 final size:47
Alignment explanation
Indices: 106144--106238 Score: 138
Period size: 47 Copynumber: 2.0 Consensus size: 47
106134 AAAGTTAGAA
* *
106144 TTAAGGTATTATTAAATATAAAATAATAAAATA-AAATGTTATTAAAT
1 TTAAGGTATTATTAAATATAAAA-AATAAAAAACAAATATTATTAAAT
* *
106191 TTAAGTTATTATTGAATATAAAAAATAAAAAACAAATATTATTAAAT
1 TTAAGGTATTATTAAATATAAAAAATAAAAAACAAATATTATTAAAT
106238 T
1 T
106239 ATTAAATATA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 8 0.19
47 35 0.81
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (47 bp):
TTAAGGTATTATTAAATATAAAAAATAAAAAACAAATATTATTAAAT
Found at i:106249 original size:38 final size:37
Alignment explanation
Indices: 106198--106277 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 37
106188 AATTTAAGTT
*
106198 ATTATTGAATATAAAAAATAAAAAACAAATATTATTAA
1 ATTATTAAATATAAAAAATAAAAAACAAATATTATT-A
*
106236 ATTATTAAATATAAAAAATAAAATACAAATATTATTA
1 ATTATTAAATATAAAAAATAAAAAACAAATATTATTA
106273 ATTAT
1 ATTAT
106278 ATTATAATCG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 6 0.15
38 34 0.85
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (37 bp):
ATTATTAAATATAAAAAATAAAAAACAAATATTATTA
Found at i:107255 original size:15 final size:15
Alignment explanation
Indices: 107229--107270 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
107219 AAAATTAATA
107229 ATTTTTTATTTTATAG
1 ATTTTTT-TTTTATAG
*
107245 ATTTTTTTTTTATTG
1 ATTTTTTTTTTATAG
*
107260 -TTTATTTTTTA
1 ATTTTTTTTTTA
107271 GTTTTTGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 10 0.42
15 7 0.29
16 7 0.29
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (15 bp):
ATTTTTTTTTTATAG
Found at i:108552 original size:37 final size:36
Alignment explanation
Indices: 108480--108553 Score: 85
Period size: 37 Copynumber: 2.0 Consensus size: 36
108470 TAAAAAATTT
* * * *
108480 AAAATTTAATTTAATTAATTTATATAATAATTTTTA
1 AAAAATTAATTTAATAAATTTAAATAATAAATTTTA
**
108516 AAAAATTATATTTAATAAATTTAAATTTTAAATTTTA
1 AAAAATTA-ATTTAATAAATTTAAATAATAAATTTTA
108553 A
1 A
108554 TATTTATAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
36 7 0.23
37 24 0.77
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (36 bp):
AAAAATTAATTTAATAAATTTAAATAATAAATTTTA
Found at i:108564 original size:22 final size:21
Alignment explanation
Indices: 108534--108575 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
108524 TATTTAATAA
108534 ATTTAAATTTTAAATTTTAAT
1 ATTTAAATTTTAAATTTTAAT
**
108555 ATTTATAATTTTTTATTTTAA
1 ATTTA-AATTTTAAATTTTAA
108576 AATGTGACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTAAATTTTAAATTTTAAT
Found at i:109360 original size:23 final size:23
Alignment explanation
Indices: 109334--109381 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
109324 TATTTAATAA
109334 AATAAAATTTTAAAAATTAAATT
1 AATAAAATTTTAAAAATTAAATT
* * *
109357 AATAAATTTTTAAATATTTAATT
1 AATAAAATTTTAAAAATTAAATT
109380 AA
1 AA
109382 AAATCGAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AATAAAATTTTAAAAATTAAATT
Found at i:112137 original size:3 final size:3
Alignment explanation
Indices: 112129--112158 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
112119 GTGCTCACGA
112129 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
112159 ATTGGTTGCT
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:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:112431 original size:2 final size:2
Alignment explanation
Indices: 112424--112461 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
112414 TCAGCAATAC
*
112424 AT AT AT AT AT AC AT AT AT AT AT AT AT AT 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
112462 GAATATAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:112437 original size:12 final size:12
Alignment explanation
Indices: 112420--112458 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
112410 GCATTCAGCA
112420 ATACATATATAT
1 ATACATATATAT
112432 ATACATATATAT
1 ATACATATATAT
*
112444 ATATATATATAT
1 ATACATATATAT
112456 ATA
1 ATA
112459 TATGAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (12 bp):
ATACATATATAT
Found at i:112533 original size:2 final size:2
Alignment explanation
Indices: 112526--112553 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
112516 GTAAGACTTG
112526 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
112554 AAAATGGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:112962 original size:15 final size:15
Alignment explanation
Indices: 112944--112975 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
112934 GAACTTTTTA
*
112944 TTATTTTTATTCTTT
1 TTATTTTCATTCTTT
112959 TTATTTTCATTCTTT
1 TTATTTTCATTCTTT
112974 TT
1 TT
112976 TTACTCACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (15 bp):
TTATTTTCATTCTTT
Found at i:113455 original size:14 final size:15
Alignment explanation
Indices: 113436--113466 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
113426 TTGTTCTCTC
113436 TTTTTTTTTT-CTTT
1 TTTTTTTTTTCCTTT
113450 TTTTTTTTTTCCTTT
1 TTTTTTTTTTCCTTT
113465 TT
1 TT
113467 ACCTCCTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTTTTTCCTTT
Found at i:116686 original size:10 final size:10
Alignment explanation
Indices: 116671--116696 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
116661 TAGATAGTAA
116671 TTTTTTGGAT
1 TTTTTTGGAT
116681 TTTTTTGGAT
1 TTTTTTGGAT
116691 TTTTTT
1 TTTTTT
116697 CTCAAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.15, T:0.77
Consensus pattern (10 bp):
TTTTTTGGAT
Found at i:116760 original size:17 final size:17
Alignment explanation
Indices: 116738--116779 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
116728 ATTTGGTGGA
116738 TTTTTTCACCAATTTAG
1 TTTTTTCACCAATTTAG
*
116755 TTTTTTCACCAATTTGG
1 TTTTTTCACCAATTTAG
*
116772 ATTTTTCA
1 TTTTTTCA
116780 AATGATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.21, C:0.17, G:0.07, T:0.55
Consensus pattern (17 bp):
TTTTTTCACCAATTTAG
Found at i:118627 original size:37 final size:35
Alignment explanation
Indices: 118572--118647 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 35
118562 ATAACAACAG
*
118572 AAAAATAATTTTAAATTTATTAAATATCATATTTT
1 AAAAATAATTTTAAATTTATTAAATATCATATCTT
*
118607 AAAAATAATTATTTAAATTTATTAAATATCGTATCTT
1 AAAAATAA-T-TTTAAATTTATTAAATATCATATCTT
118644 AAAA
1 AAAA
118648 TCTACTAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 8 0.22
36 1 0.03
37 28 0.76
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (35 bp):
AAAAATAATTTTAAATTTATTAAATATCATATCTT
Found at i:125451 original size:22 final size:20
Alignment explanation
Indices: 125426--125476 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 20
125416 ATAATATAAT
*
125426 ATAATTAAAATTTAATTTTATA
1 ATAATTAAAA--TAATTTTAAA
125448 ATAATTAAAATAATTTTAAA
1 ATAATTAAAATAATTTTAAA
125468 ATTAATTAA
1 A-TAATTAA
125477 GTTTTTATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 10 0.37
21 7 0.26
22 10 0.37
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAATTAAAATAATTTTAAA
Found at i:129583 original size:437 final size:437
Alignment explanation
Indices: 128765--129640 Score: 1655
Period size: 437 Copynumber: 2.0 Consensus size: 437
128755 CTTTTTTGGC
128765 CAAAAAAGGGTTTGCAATCATCGTCAGTTGATTCTTTATGGACAGAAGCTGTATAGGGATATGAA
1 CAAAAAAGGGTTTGCAATCATCGTCAGTTGATTCTTTATGGACAGAAGCTGTATAGGGATATGAA
128830 AATTAAAAAAAAAAATCACCTGAAAAGACATACAATGGATGGAAAATGGGGCATTCAAGTGGATA
66 AATTAAAAAAAAAAATCACCTGAAAAGACATACAATGGATGGAAAATGGGGCATTCAAGTGGATA
*
128895 TATGATATATTTTGGCAATAAGGTTCAACAGGAGATTTGTTAAAAAAAGTTGAAATAAGAGAAAA
131 TATGATAAATTTTGGCAATAAGGTTCAACAGGAGATTTGTTAAAAAAAGTTGAAATAAGAGAAAA
128960 AGATGACACCAACAGTAAGCAGAATGAAGAATACAAGATATTGCTCTGCTATAAATAAAGCCTCA
196 AGATGACACCAACAGTAAGCAGAATGAAGAATACAAGATATTGCTCTGCTATAAATAAAGCCTCA
129025 TTCTTCCAACTTGTACAAAGGAACAATCAGCGATAGAATTGAAAATAGAGAAGGTTCAACCACAA
261 TTCTTCCAACTTGTACAAAGGAACAATCAGCGATAGAATTGAAAATAGAGAAGGTTCAACCACAA
*
129090 ATTACCTTTATTTTTTAGAATAATAAGAGAACGATTTGTCACAACAGACGCACAAAAGGCCCGTG
326 ATTACCTTTATTTTTTAGAATAATAAGAGAACGATTTGTCACAACAGACACACAAAAGGCCCGTG
*
129155 CGATGTCAGTCATTGTTCTAGACAATATGATGGATACACAAGGGAAT
391 CGATGTCAGTCATTGTTCTAGACAATATGATAGATACACAAGGGAAT
129202 CAAAAAAGGGTTTGCAATCATCGTCAGTTGATTCTTTATGGACAGAAGCTGTATAGGGATATGAA
1 CAAAAAAGGGTTTGCAATCATCGTCAGTTGATTCTTTATGGACAGAAGCTGTATAGGGATATGAA
*
129267 AATTAAAAAAAAAAAATCACCTGAAAAGACATACAATGGATGGGAAATGGGGCATTCAAGTGGAT
66 AATT-AAAAAAAAAAATCACCTGAAAAGACATACAATGGATGGAAAATGGGGCATTCAAGTGGAT
* *
129332 ATATGATAAATTTTGGCAATAAGGTTCAACAGGAGATTTG-TGAAAAAAGTTGAAATGAGAGAAA
130 ATATGATAAATTTTGGCAATAAGGTTCAACAGGAGATTTGTTAAAAAAAGTTGAAATAAGAGAAA
* *
129396 AAGATGACACCAACAGTAAGCAGAATGAAGAATACGAGATATTGCTCTGCTATAAATAATGCCTC
195 AAGATGACACCAACAGTAAGCAGAATGAAGAATACAAGATATTGCTCTGCTATAAATAAAGCCTC
129461 ATTCTTCCAACTTGTACAAAGGAACAATCAGCGATAGAATTGAAAATAGAGAAGGTTCAACCACA
260 ATTCTTCCAACTTGTACAAAGGAACAATCAGCGATAGAATTGAAAATAGAGAAGGTTCAACCACA
*
129526 AATTACTTTTATTTTTTAGAATAATAAGAGAACGATTTGTCACAACAGACACACAAAAGGCCCGT
325 AATTACCTTTATTTTTTAGAATAATAAGAGAACGATTTGTCACAACAGACACACAAAAGGCCCGT
129591 GCGATGTCAGTCATTGTTCTAGACAATATGATAGATACACAAGGGAAT
390 GCGATGTCAGTCATTGTTCTAGACAATATGATAGATACACAAGGGAAT
129639 CA
1 CA
129641 GGAGAGAGGG
Statistics
Matches: 429, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
437 331 0.77
438 98 0.23
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.25
Consensus pattern (437 bp):
CAAAAAAGGGTTTGCAATCATCGTCAGTTGATTCTTTATGGACAGAAGCTGTATAGGGATATGAA
AATTAAAAAAAAAAATCACCTGAAAAGACATACAATGGATGGAAAATGGGGCATTCAAGTGGATA
TATGATAAATTTTGGCAATAAGGTTCAACAGGAGATTTGTTAAAAAAAGTTGAAATAAGAGAAAA
AGATGACACCAACAGTAAGCAGAATGAAGAATACAAGATATTGCTCTGCTATAAATAAAGCCTCA
TTCTTCCAACTTGTACAAAGGAACAATCAGCGATAGAATTGAAAATAGAGAAGGTTCAACCACAA
ATTACCTTTATTTTTTAGAATAATAAGAGAACGATTTGTCACAACAGACACACAAAAGGCCCGTG
CGATGTCAGTCATTGTTCTAGACAATATGATAGATACACAAGGGAAT
Found at i:132666 original size:11 final size:11
Alignment explanation
Indices: 132629--132667 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
132619 AAATACTTTC
*
132629 AAATATAATTT
1 AAATAAAATTT
132640 AAATTAAAA-TT
1 AAA-TAAAATTT
132651 AAATAAAATTT
1 AAATAAAATTT
132662 AAATAA
1 AAATAA
132668 TAAAATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 5 0.20
11 16 0.64
12 4 0.16
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AAATAAAATTT
Found at i:132755 original size:2 final size:2
Alignment explanation
Indices: 132748--132777 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
132738 ACTAATACTT
132748 TA TA TA TA TA TA TA TA CTA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA T
132778 TAATTACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:133474 original size:24 final size:24
Alignment explanation
Indices: 133442--133494 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
133432 ATTACATAAT
* *
133442 ATAAAAAAATTTAAATATAACATA
1 ATAAAAAAATATAAATATAACAAA
*
133466 ATAAAAAAATATAAATATAATAAA
1 ATAAAAAAATATAAATATAACAAA
133490 ATAAA
1 ATAAA
133495 TATATAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (24 bp):
ATAAAAAAATATAAATATAACAAA
Found at i:133490 original size:16 final size:17
Alignment explanation
Indices: 133454--133502 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
133444 AAAAAAATTT
133454 AAATATAACATAATAAAA
1 AAATATAACAT-ATAAAA
*
133472 AAATATAA-ATATAATA
1 AAATATAACATATAAAA
*
133488 AAATA-AATATATAAA
1 AAATATAACATATAAA
133503 TATTAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 2 0.07
16 16 0.57
17 2 0.07
18 8 0.29
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATATAACATATAAAA
Found at i:133509 original size:20 final size:20
Alignment explanation
Indices: 133456--133526 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
133446 AAAAATTTAA
133456 ATATAACATAATAAAAAAAT
1 ATATAACATAATAAAAAAAT
*
133476 ATA-AATATAATAAAATAAAT
1 ATATAACATAATAAAA-AAAT
* *
133496 ATATAA-ATATTAAAAAATTT
1 ATATAACATAATAAAAAA-AT
*
133516 ATATAATATAA
1 ATATAACATAA
133527 ATTTATTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
19 13 0.30
20 25 0.58
21 5 0.12
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (20 bp):
ATATAACATAATAAAAAAAT
Found at i:133758 original size:26 final size:25
Alignment explanation
Indices: 133729--133781 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
133719 ATAAAATAAA
*
133729 ATTAGATGGTT-AATTTTTATGATTAT
1 ATTAG-TGGTTAAATCTTTAT-ATTAT
*
133755 ATTAGTGTTTAAATCTTTATATTAT
1 ATTAGTGGTTAAATCTTTATATTAT
133780 AT
1 AT
133782 ATTTTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (25 bp):
ATTAGTGGTTAAATCTTTATATTAT
Found at i:134296 original size:21 final size:22
Alignment explanation
Indices: 134264--134304 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
134254 ATTTTATCAT
*
134264 ACATAAATATAATTAAAATATA
1 ACATAAATATAATAAAAATATA
134286 ACATAAA-ATAATAAAAATA
1 ACATAAATATAATAAAAATA
134305 ATATGATCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (22 bp):
ACATAAATATAATAAAAATATA
Found at i:134492 original size:8 final size:8
Alignment explanation
Indices: 134469--134534 Score: 78
Period size: 8 Copynumber: 8.0 Consensus size: 8
134459 ACATAAAAAT
*
134469 AATATTAA
1 AATATAAA
134477 AATGATAAA
1 AAT-ATAAA
134486 AATATAAA
1 AATATAAA
134494 AATATAAA
1 AATATAAA
134502 AATATAAA
1 AATATAAA
**
134510 AATATATT
1 AATATAAA
*
134518 AATATATAT
1 AATATA-AA
134527 AATATAAA
1 AATATAAA
134535 TTATTATCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
8 37 0.73
9 14 0.27
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (8 bp):
AATATAAA
Found at i:134521 original size:24 final size:24
Alignment explanation
Indices: 134466--134534 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 24
134456 GTAACATAAA
*
134466 AATAATATTAAAATGATAAAAATAT
1 AATAATATAAAAAT-ATAAAAATAT
*
134491 AAAAATATAAAAATATAAAAATAT
1 AATAATATAAAAATATAAAAATAT
* *
134515 ATTAATATATATAATATAAA
1 AATAATATA-AAAATATAAA
134535 TTATTATCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
24 17 0.45
25 21 0.55
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (24 bp):
AATAATATAAAAATATAAAAATAT
Found at i:134944 original size:9 final size:8
Alignment explanation
Indices: 134930--135074 Score: 60
Period size: 7 Copynumber: 18.8 Consensus size: 8
134920 TTATTTATAT
134930 TATATTAA
1 TATATTAA
134938 TATTATTTAA
1 TA-TA-TTAA
134948 TATATT-A
1 TATATTAA
134955 TA-ATT-A
1 TATATTAA
134961 TAT-TTAA
1 TATATTAA
*
134968 AATATT-A
1 TATATTAA
**
134975 TATATTTT
1 TATATTAA
134983 TATA-TAA
1 TATATTAA
*
134990 -ATTTTAA
1 TATATTAA
*
134997 AATATTAA
1 TATATTAA
*
135005 TA-ATTTA
1 TATATTAA
135012 TATTATATAA
1 TA-TAT-TAA
*
135022 -ATTTTAA
1 TATATTAA
*
135029 TAAATTAA
1 TATATTAA
135037 TATATTTAA
1 TATA-TTAA
**
135046 TATTATTTT
1 TA-TATTAA
135055 TATATT-A
1 TATATTAA
*
135062 TATTTTAA
1 TATATTAA
135070 T-TATT
1 TATATT
135075 TTCATTACTA
Statistics
Matches: 103, Mismatches: 19, Indels: 31
0.67 0.12 0.20
Matches are distributed among these distances:
6 10 0.10
7 33 0.32
8 33 0.32
9 17 0.17
10 10 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TATATTAA
Found at i:134955 original size:23 final size:21
Alignment explanation
Indices: 134916--135074 Score: 65
Period size: 23 Copynumber: 7.7 Consensus size: 21
134906 AATTATCAAC
*
134916 ATATTTATTTATATTATATTAAT
1 ATATTTA-ATATATTATA-TAAT
*
134939 ATTATTTAATATATTATA-ATT
1 A-TATTTAATATATTATATAAT
*
134960 ATATTTAAAATATTATAT-AT
1 ATATTTAATATATTATATAAT
* *
134980 -T-TTTATATAAATT-T-TAAA
1 ATATTTA-ATATATTATATAAT
134998 ATATTAATAATTTATATTATATAA-
1 ATATT--TAA--TATATTATATAAT
135022 AT-TTTAATA-A--AT-TAAT
1 ATATTTAATATATTATATAAT
* *
135038 ATATTTAATATTATTTTTATATT
1 ATATTTAATA-TA-TTATATAAT
135061 ATATTTTAAT-TATT
1 ATA-TTTAATATATT
135075 TTCATTACTA
Statistics
Matches: 105, Mismatches: 10, Indels: 44
0.66 0.06 0.28
Matches are distributed among these distances:
15 3 0.03
16 4 0.04
17 8 0.08
18 7 0.07
19 10 0.10
20 18 0.17
21 9 0.09
22 5 0.05
23 23 0.22
24 15 0.14
25 3 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTTAATATATTATATAAT
Found at i:134958 original size:20 final size:19
Alignment explanation
Indices: 134920--135053 Score: 76
Period size: 20 Copynumber: 7.3 Consensus size: 19
134910 ATCAACATAT
134920 TTATTT-ATATTATATTAATA
1 TTATTTAATA-TAT-TTAATA
134940 TTATTTAATATATTATAAT-
1 TTATTTAATATATT-TAATA
*
134959 TATATTTAAAATA-TTATATA
1 T-TATTTAATATATTTA-ATA
*
134979 TT-TTTATATAAATTTTAA-A
1 TTATTTA-ATATA-TTTAATA
*
134998 ATA-TTAATA-ATTT-ATA
1 TTATTTAATATATTTAATA
*
135014 TTATATAA-AT-TTTAATA
1 TTATTTAATATATTTAATA
*
135031 --AATTAATATATTTAATA
1 TTATTTAATATATTTAATA
135048 TTATTT
1 TTATTT
135054 TTATATTATA
Statistics
Matches: 88, Mismatches: 9, Indels: 35
0.67 0.07 0.27
Matches are distributed among these distances:
15 5 0.06
16 12 0.14
17 14 0.16
18 9 0.10
19 17 0.19
20 25 0.28
21 6 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTATTTAATATATTTAATA
Found at i:134973 original size:29 final size:28
Alignment explanation
Indices: 134944--135019 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 28
134934 TTAATATTAT
134944 TTAATATATTATAATTATATTTAAAATA
1 TTAATATATTATAATTATATTTAAAATA
* * *
134972 TT-ATATATTTTTATATAAATTTTAAAATA
1 TTAATATATTATAAT-TATA-TTTAAAATA
135001 TTAATA-ATT-TATATTATAT
1 TTAATATATTATA-ATTATAT
135020 AAATTTTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
27 11 0.28
28 9 0.23
29 16 0.41
30 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TTAATATATTATAATTATATTTAAAATA
Found at i:135018 original size:32 final size:32
Alignment explanation
Indices: 134963--135051 Score: 107
Period size: 32 Copynumber: 2.8 Consensus size: 32
134953 TATAATTATA
134963 TTTAAAATATT-AT-ATATT-T-TTATATAAAT
1 TTTAAAATATTAATAAT-TTATATTATATAAAT
134992 TTTAAAATATTAATAATTTATATTATATAAAT
1 TTTAAAATATTAATAATTTATATTATATAAAT
135024 TTTAATAA-ATTAATATATTTAATATTAT
1 TTTAA-AATATTAATA-ATTT-ATATTAT
135052 TTTTATATTA
Statistics
Matches: 53, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
29 11 0.21
30 4 0.08
31 3 0.06
32 22 0.42
33 6 0.11
34 7 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
TTTAAAATATTAATAATTTATATTATATAAAT
Found at i:135023 original size:24 final size:24
Alignment explanation
Indices: 134996--135064 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
134986 ATAAATTTTA
134996 AAATATTAATAATTTATATTATAT
1 AAATATTAATAATTTATATTATAT
* *
135020 AAATTTTAATAAATTA-A-TATATT
1 AAATATTAATAATTTATATTATA-T
* *
135043 TAATATT-AT-TTTTATATTATAT
1 AAATATTAATAATTTATATTATAT
135065 TTTAATTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
21 3 0.08
22 8 0.22
23 11 0.31
24 14 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
AAATATTAATAATTTATATTATAT
Found at i:135052 original size:10 final size:9
Alignment explanation
Indices: 134921--135053 Score: 66
Period size: 10 Copynumber: 14.6 Consensus size: 9
134911 TCAACATATT
134921 TATTT-ATA
1 TATTTAATA
134929 TTATATTAATA
1 -TAT-TTAATA
134940 TTATTTAATA
1 -TATTTAATA
134950 TATTATAATTA
1 TATT-TAA-TA
*
134961 TATTTAAAA
1 TATTTAATA
134970 TA-TTATATA
1 TATTTA-ATA
*
134979 TTTTTATATA
1 TATTTA-ATA
* *
134989 AATTTTAAAA
1 TA-TTTAATA
134999 TA-TTAATA
1 TATTTAATA
135007 -ATTT-ATA
1 TATTTAATA
*
135014 TTATATAA-A
1 -TATTTAATA
135023 T-TTTAATA
1 TATTTAATA
*
135031 -AATTAATA
1 TATTTAATA
135039 TATTTAATA
1 TATTTAATA
135048 TTATTT
1 -TATTT
135054 TTATATTATA
Statistics
Matches: 97, Mismatches: 12, Indels: 29
0.70 0.09 0.21
Matches are distributed among these distances:
7 8 0.08
8 18 0.19
9 24 0.25
10 30 0.31
11 17 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TATTTAATA
Found at i:135072 original size:11 final size:12
Alignment explanation
Indices: 135037--135073 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
135027 AATAAATTAA
*
135037 TATATTTAATAT
1 TATATTTTATAT
135049 TAT-TTTTATAT
1 TATATTTTATAT
135060 TATATTTTA-AT
1 TATATTTTATAT
135071 TAT
1 TAT
135074 TTTCATTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TATATTTTATAT
Found at i:141281 original size:53 final size:54
Alignment explanation
Indices: 141174--141301 Score: 215
Period size: 53 Copynumber: 2.4 Consensus size: 54
141164 CCTTAATTTA
*
141174 CCACAGTT-TGAGTCTCAAAATCAGTCCCAAGTACATAACAAAAACCAAAATCTG
1 CCACA-TTCTGAGTCTCAAAACCAGTCCCAAGTACATAACAAAAACCAAAATCTG
*
141228 CCACATTCTGAGTCTCAAAACCAGTCCC-AGTACATAACGAAAACCAAAATCTG
1 CCACATTCTGAGTCTCAAAACCAGTCCCAAGTACATAACAAAAACCAAAATCTG
141281 CCACATTCTGAGTCTCAAAAC
1 CCACATTCTGAGTCTCAAAAC
141302 TAGGCTAAGT
Statistics
Matches: 71, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
53 47 0.66
54 24 0.34
ACGTcount: A:0.40, C:0.29, G:0.11, T:0.20
Consensus pattern (54 bp):
CCACATTCTGAGTCTCAAAACCAGTCCCAAGTACATAACAAAAACCAAAATCTG
Found at i:149668 original size:21 final size:20
Alignment explanation
Indices: 149644--149683 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
149634 GTTCTGAAAT
149644 TATTAAAAATAATAAATTTAA
1 TATTAAAAATAAT-AATTTAA
* *
149665 TATTTAAAATCATAATTTA
1 TATTAAAAATAATAATTTA
149684 TTTGAATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TATTAAAAATAATAATTTAA
Found at i:149735 original size:26 final size:26
Alignment explanation
Indices: 149684--149733 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
149674 TCATAATTTA
* *
149684 TTTGAATTTGTTATAAAAAAATAAAT
1 TTTGAATTAGCTATAAAAAAATAAAT
149710 TTTGAATTAGCTAT-AAAAAATAAA
1 TTTGAATTAGCTATAAAAAAATAAA
149734 ATAAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (26 bp):
TTTGAATTAGCTATAAAAAAATAAAT
Done.