Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 26 of 100
Found at i:4797608 original size:22 final size:22
Alignment explanation
Indices: 4797438--4797624 Score: 141
Period size: 22 Copynumber: 8.5 Consensus size: 22
4797428 TAAATTAGTC
* * * *
4797438 AATCATTCATAATTTTGTAGTA
1 AATCATTGATAACTTAGTAATA
4797460 AATCATTGATAACTTCA-TAGA-A
1 AATCATTGATAACTT-AGTA-ATA
*
4797482 AATTAGTT-ATAACTTTA-TAATA
1 AATCA-TTGATAAC-TTAGTAATA
* * *
4797504 AATTATTAATAACTTAGTAGTA
1 AATCATTGATAACTTAGTAATA
* * *
4797526 AATCATTCATAA-TTAATAGTA
1 AATCATTGATAACTTAGTAATA
* *
4797547 AATCATTGATAATTTAATAATA
1 AATCATTGATAACTTAGTAATA
*
4797569 AATCATTGATAACATAGTAATA
1 AATCATTGATAACTTAGTAATA
* * *
4797591 AATCAATGATAACTTAGTTATC
1 AATCATTGATAACTTAGTAATA
*
4797613 AATCAATGATAA
1 AATCATTGATAA
4797625 GTTTTTTTAT
Statistics
Matches: 139, Mismatches: 18, Indels: 16
0.80 0.10 0.09
Matches are distributed among these distances:
21 25 0.18
22 110 0.79
23 4 0.03
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (22 bp):
AATCATTGATAACTTAGTAATA
Found at i:4797617 original size:87 final size:88
Alignment explanation
Indices: 4797433--4797617 Score: 209
Period size: 87 Copynumber: 2.1 Consensus size: 88
4797423 AGTAGTAAAT
** * * *
4797433 TAGTCAATCATTCATAATTTTGTAGTAAATCATTGATAACTTCATAGAAAATTAGTTATAACTTT
1 TAGTCAATCATTCATAATTTAATAGTAAATCATTGATAACTTAATAGAAAATCAGTTATAACTAT
* *
4797498 ATAATAAATTATTAATAACTTAG
66 ATAATAAATCAATAATAACTTAG
* *
4797521 TAGTAAATCATTCATAA-TTAATAGTAAATCATTGATAATTTAATA-ATAAATCA-TTGATAAC-
1 TAGTCAATCATTCATAATTTAATAGTAAATCATTGATAACTTAATAGA-AAATCAGTT-ATAACT
*
4797582 ATAGTAATAAATCAATGATAACTTAG
64 ATA-TAATAAATCAATAATAACTTAG
4797608 TTA-TCAATCA
1 -TAGTCAATCA
4797618 ATGATAAGTT
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
86 5 0.06
87 59 0.72
88 18 0.22
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (88 bp):
TAGTCAATCATTCATAATTTAATAGTAAATCATTGATAACTTAATAGAAAATCAGTTATAACTAT
ATAATAAATCAATAATAACTTAG
Found at i:4802143 original size:2 final size:2
Alignment explanation
Indices: 4802130--4802166 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4802120 TAAGTAAGTG
*
4802130 TA TA TG 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 T
4802167 TGCTCTCTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4824914 original size:311 final size:310
Alignment explanation
Indices: 4824294--4825226 Score: 1741
Period size: 313 Copynumber: 3.0 Consensus size: 310
4824284 ATTTACATTA
*
4824294 ATAATATGAATTAGGTCCCATTAAATTAACATGGCAATTGTAAAATATG---AT-CTAATCTATT
1 ATAATATGAATTAGGTCCCATTAAATTAACGTGGCAATTGTAAAATATGTTAATCCTAAT-TATT
4824355 GAATTTACAACCTAATGTCATATGTAATAAGATTTAGCTAGCAACTCATTTTTCATTGACGGATA
65 GAATTTACAACCTAATGTCATATGTAATAAGATTTAGCTAGCAACTCATTTTTCATTGACGGATA
*
4824420 ACCATACTAACCAGATATAGTAATATTTTTTAGAAAAATTAATAATCAAATGTATGATCTTTGTT
130 ACCATACTAACCAGATATAGTAATATTTTTAAGAAAAATTAATAATCAAATGTATGATCTTTG-T
4824485 AAAATGACTTACAATTCTGTTGGCATCATATTCTGCAGCAACAGATTCCTCAATGGGT-ACAGAT
194 AAAATGACTTACAATTCTGTTGGCATCATATTCTGCAGCAACAGATTCCTCAATGGGTAACAGAT
4824549 CCGGATAGTCCAAAACATCTTGACCTACTGTCTTCTGGAACAATCTCCAAGG
259 CCGGATAGTCCAAAACATCTTGACCTACTGTCTTCTGGAACAATCTCCAAGG
4824601 ATAATATGAATTAGGTTCCCATTAAATTAACGTGGCAATTGTAAAATATGTTAATCCTAATTATT
1 ATAATATGAATTAGG-TCCCATTAAATTAACGTGGCAATTGTAAAATATGTTAATCCTAATTATT
4824666 GAATTTACAACCTAATGTCATATGTAATAAGATTTAGCTAGCAACTCATTTTTCATTGACGGATA
65 GAATTTACAACCTAATGTCATATGTAATAAGATTTAGCTAGCAACTCATTTTTCATTGACGGATA
4824731 ACCATACTAACCAGATATAGTAATATTTTTAAGAAAAATTAATAATCAAATGTATGATCTTTGTA
130 ACCATACTAACCAGATATAGTAATATTTTTAAGAAAAATTAATAATCAAATGTATGATCTTTGTA
4824796 AAATGACTTACAATTCTGTTGGCATCATATTCTGCAGCAACAGATTCCTCAATGGGTAACAGATC
195 AAATGACTTACAATTCTGTTGGCATCATATTCTGCAGCAACAGATTCCTCAATGGGTAACAGATC
4824861 CGGATAGTCCAAAACATCTTGACCTACTGTCTTCTGGAACAATCTCCAAGG
260 CGGATAGTCCAAAACATCTTGACCTACTGTCTTCTGGAACAATCTCCAAGG
4824912 ATAATATGAATTAGGTCCCATTAAATTAACGTGGCAATTGTAAAATATGATCTAATCCTAATTTA
1 ATAATATGAATTAGGTCCCATTAAATTAACGTGGCAATTGTAAAATATG-T-TAATCCTAA-TTA
*
4824977 TTGAATTTACAACCTAATGTCATATGTAATAAGATTTAGCTAGCAACTCATTTTTCATTGACCGA
63 TTGAATTTACAACCTAATGTCATATGTAATAAGATTTAGCTAGCAACTCATTTTTCATTGACGGA
*
4825042 TAACCATACTAACCAGATATAGTAATTTTTTTAAGAAAAATTAATAATCAAATGTATGATCTTTG
128 TAACCATACTAACCAGATATAGTAATATTTTTAAGAAAAATTAATAATCAAATGTATGATCTTTG
4825107 TAAAATGACTTACAATTCTGTTGGCATCATATTCTGCAGCAACAGATTCCTCAATGGGTAACAGA
193 TAAAATGACTTACAATTCTGTTGGCATCATATTCTGCAGCAACAGATTCCTCAATGGGTAACAGA
4825172 TCCGGATAGTCCAAAACATCTTGACCTACTGTCTTCTGGAACAATCTCCAAGG
258 TCCGGATAGTCCAAAACATCTTGACCTACTGTCTTCTGGAACAATCTCCAAGG
4825225 AT
1 AT
4825227 CTGGTTCTGT
Statistics
Matches: 613, Mismatches: 4, Indels: 12
0.97 0.01 0.02
Matches are distributed among these distances:
307 15 0.02
308 33 0.05
310 93 0.15
311 207 0.34
312 14 0.02
313 251 0.41
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (310 bp):
ATAATATGAATTAGGTCCCATTAAATTAACGTGGCAATTGTAAAATATGTTAATCCTAATTATTG
AATTTACAACCTAATGTCATATGTAATAAGATTTAGCTAGCAACTCATTTTTCATTGACGGATAA
CCATACTAACCAGATATAGTAATATTTTTAAGAAAAATTAATAATCAAATGTATGATCTTTGTAA
AATGACTTACAATTCTGTTGGCATCATATTCTGCAGCAACAGATTCCTCAATGGGTAACAGATCC
GGATAGTCCAAAACATCTTGACCTACTGTCTTCTGGAACAATCTCCAAGG
Found at i:4825939 original size:14 final size:14
Alignment explanation
Indices: 4825920--4825946 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4825910 GTAAGAAAGA
4825920 CTTAAATGAAGTTC
1 CTTAAATGAAGTTC
4825934 CTTAAATGAAGTT
1 CTTAAATGAAGTT
4825947 TGCAAAGTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (14 bp):
CTTAAATGAAGTTC
Found at i:4827280 original size:2 final size:2
Alignment explanation
Indices: 4827273--4827298 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4827263 TGATGTAATT
4827273 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
4827299 CTAGTTTTTA
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:4827390 original size:3 final size:3
Alignment explanation
Indices: 4827382--4827434 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
4827372 AATACATTCA
* * *
4827382 AAT AAT AAT AAT AAC AGT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4827430 AAT AA
1 AAT AA
4827435 ATATTAACAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:4827560 original size:21 final size:21
Alignment explanation
Indices: 4827529--4827597 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
4827519 CATTTGATAT
*
4827529 ATTTTGGTAACCTTGGTTAAA
1 ATTTTGGTAACCTTGGATAAA
*
4827550 AGTTTT-GTAACCTTTGATAAA
1 A-TTTTGGTAACCTTGGATAAA
* *
4827571 ATTTTGGTAACTTTGGATACA
1 ATTTTGGTAACCTTGGATAAA
4827592 ATTTTG
1 ATTTTG
4827598 ATAAAATTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 4 0.10
21 33 0.80
22 4 0.10
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.45
Consensus pattern (21 bp):
ATTTTGGTAACCTTGGATAAA
Found at i:4827597 original size:41 final size:41
Alignment explanation
Indices: 4827516--4827597 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 41
4827506 TTGATTTTAA
* *
4827516 TAACATTTGATATATTTTGGTAACCTTGGTTAAAAGTTTTG
1 TAACATTTGATAAATTTTGGTAACCTTGGATAAAAGTTTTG
* * *
4827557 TAACCTTTGATAAAATTTTGGTAACTTTGGATACAA-TTTTG
1 TAACATTTGAT-AAATTTTGGTAACCTTGGATAAAAGTTTTG
4827598 ATAAAATTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 15 0.43
42 20 0.57
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (41 bp):
TAACATTTGATAAATTTTGGTAACCTTGGATAAAAGTTTTG
Found at i:4827701 original size:21 final size:22
Alignment explanation
Indices: 4827674--4827728 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
4827664 ATTTTTATAA
* *
4827674 AATTTTTGTAATCACTTGATGT
1 AATTTTAGTAATCACTTGATAT
* * *
4827696 AATTTTGGTAA-CATTTTATAT
1 AATTTTAGTAATCACTTGATAT
4827717 AATTTTAGTAAT
1 AATTTTAGTAAT
4827729 TTATAATATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (22 bp):
AATTTTAGTAATCACTTGATAT
Found at i:4828192 original size:22 final size:22
Alignment explanation
Indices: 4828154--4828260 Score: 81
Period size: 22 Copynumber: 4.6 Consensus size: 22
4828144 AAAAGTTATT
4828154 AATTATTAACTAATTTAATACTA
1 AATTATTAA-TAATTTAATACTA
* *
4828177 AATTATTATTAATTT-ATAATTA
1 AATTATTAATAATTTAAT-ACTA
* *
4828199 AATTATTAATGATTTATTACTACAA
1 AATTATTAATAATTTA--A-TACTA
* * *
4828224 AATTATCAATAATTTACTAATA
1 AATTATTAATAATTTAATACTA
*
4828246 TATTATTACATAATT
1 AATTATTA-ATAATT
4828261 ACTACTATGT
Statistics
Matches: 65, Mismatches: 13, Indels: 12
0.72 0.14 0.13
Matches are distributed among these distances:
21 2 0.03
22 31 0.48
23 14 0.22
25 17 0.26
26 1 0.02
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.47
Consensus pattern (22 bp):
AATTATTAATAATTTAATACTA
Found at i:4828193 original size:11 final size:11
Alignment explanation
Indices: 4828149--4828217 Score: 50
Period size: 11 Copynumber: 6.3 Consensus size: 11
4828139 TATTTAAAAG
4828149 TTATTAA-TTA
1 TTATTAATTTA
*
4828159 TTAACTAATTTA
1 TT-ATTAATTTA
* * *
4828171 ATACTAAATTA
1 TTATTAATTTA
4828182 TTATTAATTTA
1 TTATTAATTTA
* *
4828193 TAATTAAATTA
1 TTATTAATTTA
* *
4828204 TTAATGATTTA
1 TTATTAATTTA
4828215 TTA
1 TTA
4828218 CTACAAAATT
Statistics
Matches: 45, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
10 2 0.04
11 39 0.87
12 4 0.09
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (11 bp):
TTATTAATTTA
Found at i:4828262 original size:22 final size:23
Alignment explanation
Indices: 4828232--4828275 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4828222 AAAATTATCA
4828232 ATAATTTACTAATATATTATTAC
1 ATAATTTACTAATATATTATTAC
* *
4828255 ATAA-TTACTACTATGTTATTA
1 ATAATTTACTAATATATTATTA
4828276 TTTATCTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (23 bp):
ATAATTTACTAATATATTATTAC
Found at i:4828267 original size:47 final size:47
Alignment explanation
Indices: 4828176--4828267 Score: 107
Period size: 47 Copynumber: 2.0 Consensus size: 47
4828166 ATTTAATACT
* * * *
4828176 AAATTATTATTAATTTATAATTAAATTATTAATGATTTATTACTACA
1 AAATTATCAATAATTTATAATTAAATTATTAATGAATTACTACTACA
*
4828223 AAATTATCAATAATTTACTAA-TATATTATTACAT-AATTACTACTA
1 AAATTATCAATAATTTA-TAATTAAATTATTA-ATGAATTACTACTA
4828268 TGTTATTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
47 33 0.87
48 5 0.13
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.46
Consensus pattern (47 bp):
AAATTATCAATAATTTATAATTAAATTATTAATGAATTACTACTACA
Found at i:4830736 original size:19 final size:20
Alignment explanation
Indices: 4830698--4830742 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
4830688 TTCATTATAT
4830698 TATTTTTATTAATAAATAATA
1 TATTTTTATT-ATAAATAATA
*
4830719 TATTTTTATT-TTAATAATA
1 TATTTTTATTATAAATAATA
4830738 TATTT
1 TATTT
4830743 AATAATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.57
21 10 0.43
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTTATTATAAATAATA
Found at i:4832749 original size:29 final size:29
Alignment explanation
Indices: 4832708--4832772 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
4832698 CCAAGAAAGT
*
4832708 AAGAAAAAAAAACTGCCTAGGAAAGTGCA
1 AAGAAAAAAAAACTGCCTAGGAAAGTACA
*
4832737 AAGAAAAAGAAACTGCCTAGGAAAGTACA
1 AAGAAAAAAAAACTGCCTAGGAAAGTACA
*
4832766 AACAAAA
1 AAGAAAA
4832773 TGACCTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.09
Consensus pattern (29 bp):
AAGAAAAAAAAACTGCCTAGGAAAGTACA
Found at i:4836193 original size:18 final size:19
Alignment explanation
Indices: 4836158--4836199 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
4836148 GTATTATTGA
*
4836158 TATTTGTTTAAATCATTTT
1 TATTTGTTTAAATAATTTT
*
4836177 TATTT-TTTAATTAATTTT
1 TATTTGTTTAAATAATTTT
4836195 TATTT
1 TATTT
4836200 ATTTTCATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
TATTTGTTTAAATAATTTT
Found at i:4837037 original size:21 final size:21
Alignment explanation
Indices: 4837009--4837060 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
4836999 TGACTTATTT
4837009 TATAATTTTGATAAATTT-TGA
1 TATAATTTT-ATAAATTTATGA
*
4837030 TATTATTTTAGT-AATTTATGA
1 TATAATTTTA-TAAATTTATGA
4837051 TATAATTTTA
1 TATAATTTTA
4837061 ATAACCATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.56
Consensus pattern (21 bp):
TATAATTTTATAAATTTATGA
Found at i:4837177 original size:21 final size:21
Alignment explanation
Indices: 4837152--4837247 Score: 113
Period size: 21 Copynumber: 4.6 Consensus size: 21
4837142 AGATAACTTA
*
4837152 TGATATAATTTTGGTAA-TAGT
1 TGATATAATTTTGGTAAGT-TT
* *
4837173 GGATATACTTTTGGTAAGTTT
1 TGATATAATTTTGGTAAGTTT
4837194 TGATATAATTTTGGTAAGTTT
1 TGATATAATTTTGGTAAGTTT
* *
4837215 TGATATAATTTTGATAACTTT
1 TGATATAATTTTGGTAAGTTT
* *
4837236 TAATAAAATTTT
1 TGATATAATTTT
4837248 AATTTTGATA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
21 64 0.98
22 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.16, T:0.50
Consensus pattern (21 bp):
TGATATAATTTTGGTAAGTTT
Found at i:4837228 original size:11 final size:11
Alignment explanation
Indices: 4837191--4837230 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
4837181 TTTTGGTAAG
4837191 TTTTGATATAA
1 TTTTGATATAA
* *
4837202 TTTTGGTA-AG
1 TTTTGATATAA
4837212 TTTTGATATAA
1 TTTTGATATAA
4837223 TTTTGATA
1 TTTTGATA
4837231 ACTTTTAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (11 bp):
TTTTGATATAA
Found at i:4837258 original size:27 final size:27
Alignment explanation
Indices: 4837220--4837273 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
4837210 AGTTTTGATA
*
4837220 TAATTTTGATAACTTTTAATAAAATTT
1 TAATTTTGATAACCTTTAATAAAATTT
*
4837247 TAATTTTGATAACCTTTAATATAATTT
1 TAATTTTGATAACCTTTAATAAAATTT
4837274 GATAACCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.52
Consensus pattern (27 bp):
TAATTTTGATAACCTTTAATAAAATTT
Found at i:4837269 original size:48 final size:47
Alignment explanation
Indices: 4837199--4837369 Score: 135
Period size: 41 Copynumber: 3.8 Consensus size: 47
4837189 AGTTTTGATA
* ** * *
4837199 TAATTTTGGTAAGTTTTGATATAATTTTGATAACTTTTA-ATAAAATTT
1 TAATTTTGATAACCTTTAATATAA-TTTGATAAC-CTTAGATAAAATTT
4837247 TAATTTTGATAACCTTTAATATAATTTGATAACCTTAGAT--AA---
1 TAATTTTGATAACCTTTAATATAATTTGATAACCTTAGATAAAATTT
* ** *
4837289 -AATTTTGATAACCTTTAATATAATTCGATAACCTTTTATATAA-TT
1 TAATTTTGATAACCTTTAATATAATTTGATAACCTTAGATAAAATTT
* * **
4837334 TGATTTT-AAATACCTTTGTTATAATTTGATAACCTT
1 TAATTTTGATA-ACCTTTAATATAATTTGATAACCTT
4837370 TGTTATAAGT
Statistics
Matches: 103, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
41 36 0.35
43 2 0.02
45 4 0.04
46 30 0.29
47 11 0.11
48 20 0.19
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (47 bp):
TAATTTTGATAACCTTTAATATAATTTGATAACCTTAGATAAAATTT
Found at i:4837273 original size:21 final size:21
Alignment explanation
Indices: 4837196--4837334 Score: 122
Period size: 21 Copynumber: 6.4 Consensus size: 21
4837186 GTAAGTTTTG
* ** *
4837196 ATATAATTTTGGTAAGTTTTG
1 ATATAATTTTGATAACCTTTA
*
4837217 ATATAATTTTGATAACTTTTA
1 ATATAATTTTGATAACCTTTA
4837238 ATAAAATTTTAATTTTGATAACCTTTA
1 AT---A---TAATTTTGATAACCTTTA
4837265 ATATAA-TTTGATAACC-TTA
1 ATATAATTTTGATAACCTTTA
*
4837284 GATAAAATTTTGATAACCTTTA
1 -ATATAATTTTGATAACCTTTA
* *
4837306 ATATAA-TTCGATAACCTTTT
1 ATATAATTTTGATAACCTTTA
4837326 ATATAATTT
1 ATATAATTT
4837335 GATTTTAAAT
Statistics
Matches: 100, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
19 3 0.03
20 33 0.33
21 40 0.40
22 3 0.03
24 2 0.02
27 19 0.19
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.47
Consensus pattern (21 bp):
ATATAATTTTGATAACCTTTA
Found at i:4837276 original size:20 final size:20
Alignment explanation
Indices: 4837251--4837401 Score: 124
Period size: 20 Copynumber: 7.2 Consensus size: 20
4837241 AAATTTTAAT
4837251 TTTGATAACCTTTAATATAA
1 TTTGATAACCTTTAATATAA
*
4837271 TTTGATAACC-TTAGATAAAA
1 TTTGATAACCTTTA-ATATAA
4837291 TTTTGATAACCTTTAATATAA
1 -TTTGATAACCTTTAATATAA
* *
4837312 TTCGATAACCTTTTATATAA
1 TTTGATAACCTTTAATATAA
**
4837332 TTTGATTTTAAATACCTTTGTTATAA
1 TTTGA---T--A-ACCTTTAATATAA
**
4837358 TTTGATAACCTTTGTTATAA
1 TTTGATAACCTTTAATATAA
* * *
4837378 GTTTGATAATCTTTGATAAAA
1 -TTTGATAACCTTTAATATAA
4837399 TTT
1 TTT
4837402 TAGTAATCTT
Statistics
Matches: 111, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.03
20 53 0.48
21 33 0.30
22 3 0.03
23 2 0.02
25 1 0.01
26 16 0.14
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.47
Consensus pattern (20 bp):
TTTGATAACCTTTAATATAA
Found at i:4837334 original size:41 final size:41
Alignment explanation
Indices: 4837247--4837334 Score: 140
Period size: 41 Copynumber: 2.1 Consensus size: 41
4837237 AATAAAATTT
*
4837247 TAATTTTGATAACCTTTAATATAATTTGATAACCTTAGATA
1 TAATTTTGATAACCTTTAATATAATTCGATAACCTTAGATA
* **
4837288 AAATTTTGATAACCTTTAATATAATTCGATAACCTTTTATA
1 TAATTTTGATAACCTTTAATATAATTCGATAACCTTAGATA
4837329 TAATTT
1 TAATTT
4837335 GATTTTAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (41 bp):
TAATTTTGATAACCTTTAATATAATTCGATAACCTTAGATA
Found at i:4837408 original size:21 final size:21
Alignment explanation
Indices: 4837384--4837616 Score: 75
Period size: 21 Copynumber: 11.0 Consensus size: 21
4837374 ATAAGTTTGA
4837384 TAATCTTTGATAAAATTTTAG
1 TAATCTTTGATAAAATTTTAG
* **
4837405 TAATCTTTTATATTATTTTAG
1 TAATCTTTGATAAAATTTTAG
* ** *
4837426 TAAT-TTATAATATTATTTTAC
1 TAATCTT-TGATAAAATTTTAG
* * *
4837447 TAATCATGGATACAATTTT-G
1 TAATCTTTGATAAAATTTTAG
* *
4837467 -AAACTTTTTATAAAATTTT-G
1 TAATC-TTTGATAAAATTTTAG
* *
4837487 ATAATAACTTATTAATATAATTTTAG
1 -TAAT--C-T-TTGATAAAATTTTAG
* *
4837513 TAA-CTTTTAATACAATTTT-G
1 TAATC-TTTGATAAAATTTTAG
* * * * *
4837533 ACAAGT-TATGATATAATGTTGG
1 -TAA-TCTTTGATAAAATTTTAG
* *
4837555 TGATCATTGATAAAATTTTAG
1 TAATCTTTGATAAAATTTTAG
* * *
4837576 TAATCTTTGATAGAATCTTAT
1 TAATCTTTGATAAAATTTTAG
* *
4837597 TACTCTTGGATAAAATTTTA
1 TAATCTTTGATAAAATTTTA
4837617 ATAAAATTTT
Statistics
Matches: 157, Mismatches: 41, Indels: 28
0.69 0.18 0.12
Matches are distributed among these distances:
19 3 0.02
20 15 0.10
21 114 0.73
22 7 0.04
24 3 0.02
25 14 0.09
26 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.48
Consensus pattern (21 bp):
TAATCTTTGATAAAATTTTAG
Found at i:4837641 original size:21 final size:21
Alignment explanation
Indices: 4837610--4837660 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
4837600 TCTTGGATAA
* *
4837610 AATTTTAATAAAATTTTATGT
1 AATTTTGATAAAATTTTATAT
* **
4837631 GATTTTGATAAGCTTTTATAT
1 AATTTTGATAAAATTTTATAT
4837652 AATTTTGAT
1 AATTTTGAT
4837661 TTTGATAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.53
Consensus pattern (21 bp):
AATTTTGATAAAATTTTATAT
Found at i:4837757 original size:20 final size:22
Alignment explanation
Indices: 4837732--4837781 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
4837722 TTTGCTAATA
*
4837732 TTTGATA-AATTTTTAAAAC-T
1 TTTGATATAATTTTGAAAACTT
*
4837752 TTTGATATAATTTTGATAACTT
1 TTTGATATAATTTTGAAAACTT
4837774 TTTGATAT
1 TTTGATAT
4837782 TATTAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 7 0.27
21 10 0.38
22 9 0.35
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (22 bp):
TTTGATATAATTTTGAAAACTT
Found at i:4838887 original size:29 final size:30
Alignment explanation
Indices: 4838836--4838894 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
4838826 AATTAATAAA
*
4838836 TTTATAATTCAAATAGTATATTAAAAATTT
1 TTTATAATTCAAATAGTAAATTAAAAATTT
*
4838866 TTTA-AATTCAAATA-TCAAATTAAATATTT
1 TTTATAATTCAAATAGT-AAATTAAAAATTT
4838895 CATATATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 1 0.04
29 21 0.81
30 4 0.15
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (30 bp):
TTTATAATTCAAATAGTAAATTAAAAATTT
Found at i:4840784 original size:15 final size:16
Alignment explanation
Indices: 4840761--4840790 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4840751 CATTTATATA
4840761 TTATATTTGTATTTAT
1 TTATATTTGTATTTAT
4840777 TTAT-TTTGTATTTA
1 TTATATTTGTATTTA
4840791 ATATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (16 bp):
TTATATTTGTATTTAT
Found at i:4840871 original size:22 final size:21
Alignment explanation
Indices: 4840846--4840895 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
4840836 ATATTAAATA
*
4840846 TAAAATTCATTTATATTTTAAT
1 TAAAATTCATATA-ATTTTAAT
* * *
4840868 TAAATTTTATATAATTTTTAT
1 TAAAATTCATATAATTTTAAT
4840889 TAAAATT
1 TAAAATT
4840896 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TAAAATTCATATAATTTTAAT
Found at i:4840880 original size:42 final size:41
Alignment explanation
Indices: 4840792--4840881 Score: 96
Period size: 41 Copynumber: 2.2 Consensus size: 41
4840782 TTGTATTTAA
*
4840792 TATATATAAAATATTAAAATTATTATATCATAATTTATATT
1 TATATATAAAATATTAAAATTATTATATCATAATTAATATT
* * **
4840833 GATATATTAAATA-TAAAATTCATTTATATTTTAATTAA-ATT
1 TATATATAAAATATTAAAATT-A-TTATATCATAATTAATATT
4840874 T-TATATAA
1 TATATATAA
4840882 TTTTTATTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
40 13 0.32
41 15 0.38
42 12 0.30
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (41 bp):
TATATATAAAATATTAAAATTATTATATCATAATTAATATT
Found at i:4841888 original size:29 final size:29
Alignment explanation
Indices: 4841855--4841913 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
4841845 TTCCACCTTA
* *
4841855 ATTGCAGCAAGCAAAGGAATCATATAAAT
1 ATTGCAGCAAGCAAAGCAATCACATAAAT
*
4841884 ATTGCAGCAAGCAAAGCAATCGCATAAAT
1 ATTGCAGCAAGCAAAGCAATCACATAAAT
4841913 A
1 A
4841914 GAAAAGGACC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (29 bp):
ATTGCAGCAAGCAAAGCAATCACATAAAT
Found at i:4853087 original size:29 final size:29
Alignment explanation
Indices: 4853023--4853081 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
4853013 CCAAAAAAGT
4853023 AAGAAAAAGAAACTGCCTAGGAAAGTGCA
1 AAGAAAAAGAAACTGCCTAGGAAAGTGCA
4853052 AAGAAAAAGAAACTGCCTAGGAAAGTGCA
1 AAGAAAAAGAAACTGCCTAGGAAAGTGCA
4853081 A
1 A
4853082 GCAAAATGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.53, C:0.14, G:0.24, T:0.10
Consensus pattern (29 bp):
AAGAAAAAGAAACTGCCTAGGAAAGTGCA
Found at i:4853639 original size:19 final size:19
Alignment explanation
Indices: 4853615--4853652 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4853605 GTACCGATTT
4853615 AAAGCAACATATAGATGGG
1 AAAGCAACATATAGATGGG
4853634 AAAGCAACATATAGATGGG
1 AAAGCAACATATAGATGGG
4853653 CCGTGAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.26, T:0.16
Consensus pattern (19 bp):
AAAGCAACATATAGATGGG
Found at i:4857536 original size:21 final size:21
Alignment explanation
Indices: 4857512--4857720 Score: 95
Period size: 21 Copynumber: 10.0 Consensus size: 21
4857502 GTGACTTATT
4857512 ATATAATTTTGATAAATTTTG
1 ATATAATTTTGATAAATTTTG
*
4857533 ATATTATTTT-AGT-AATTTATG
1 ATATAATTTTGA-TAAATTT-TG
* **
4857554 ATATAATTTTAATAAACATTG
1 ATATAATTTTGATAAATTTTG
* * *
4857575 ATACAATTTTGGTAAGTTTTG
1 ATATAATTTTGATAAATTTTG
* * ** *
4857596 ACAAAATTTTTTG-T-AATCATA
1 ATATAA--TTTTGATAAATTTTG
** * * *
4857617 ATATAATTAGGGTAATTTTTA
1 ATATAATTTTGATAAATTTTG
* ** * *
4857638 ATACAATTGAGATAACTTATG
1 ATATAATTTTGATAAATTTTG
*
4857659 ATATAATTTTGAT-AATATTGG
1 ATATAATTTTGATAAAT-TTTG
* *
4857680 ATATAATTTTGGTAAGTTTTG
1 ATATAATTTTGATAAATTTTG
* *
4857701 ATATAATTTCGATAACTTTT
1 ATATAATTTTGATAAATTTT
4857721 AATGAAATTT
Statistics
Matches: 136, Mismatches: 42, Indels: 20
0.69 0.21 0.10
Matches are distributed among these distances:
19 3 0.02
20 9 0.07
21 112 0.82
22 7 0.05
23 5 0.04
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.47
Consensus pattern (21 bp):
ATATAATTTTGATAAATTTTG
Found at i:4857691 original size:12 final size:11
Alignment explanation
Indices: 4857657--4857714 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
4857647 AGATAACTTA
4857657 TGATATAATTT
1 TGATATAATTT
4857668 TG--ATAATATT
1 TGATATAAT-TT
*
4857678 GGATATAATTT
1 TGATATAATTT
* *
4857689 TGGTA-AGTTT
1 TGATATAATTT
4857699 TGATATAATTT
1 TGATATAATTT
*
4857710 CGATA
1 TGATA
4857715 ACTTTTAATG
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
9 5 0.14
10 11 0.31
11 15 0.42
12 5 0.14
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (11 bp):
TGATATAATTT
Found at i:4857754 original size:48 final size:47
Alignment explanation
Indices: 4857683--4857810 Score: 129
Period size: 47 Copynumber: 2.7 Consensus size: 47
4857673 ATATTGGATA
* **
4857683 TAATTTTGGTAAGTTTTGATATAATTTCGATAACTTTTA-ATGAAATTT
1 TAATTTTGATAACCTTTGATATAATTTCGATAACTTTTATAT--AATTT
* *
4857731 TAATTTTGATAACCTTTAATATAA-TTCAATAACCTTTTATATAATTT
1 TAATTTTGATAACCTTTGATATAATTTCGATAA-CTTTTATATAATTT
* *
4857778 TGATTTT-AAATACCTTTGATATAATTT-GATAAC
1 TAATTTTGATA-ACCTTTGATATAATTTCGATAAC
4857811 CTTTGTTATA
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
46 3 0.04
47 34 0.51
48 28 0.42
49 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (47 bp):
TAATTTTGATAACCTTTGATATAATTTCGATAACTTTTATATAATTT
Found at i:4857784 original size:47 final size:47
Alignment explanation
Indices: 4857701--4857828 Score: 129
Period size: 47 Copynumber: 2.7 Consensus size: 47
4857691 GTAAGTTTTG
* *
4857701 ATATAATTTCGATAA-CTTTTA-ATGAAATTTTAATTTT-GATAACCTTTA
1 ATATAA-TTCGATAACCTTTTATAT--AATTTTGATTTTAAAT-ACCTTTA
* *
4857749 ATATAATTCAATAACCTTTTATATAATTTTGATTTTAAATACCTTTG
1 ATATAATTCGATAACCTTTTATATAATTTTGATTTTAAATACCTTTA
* *
4857796 ATATAATTTGATAACCTTTGT-TATAAGTTTGAT
1 ATATAATTCGATAACCTTT-TATATAATTTTGAT
4857829 AATCTTTGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
47 52 0.75
48 15 0.22
49 2 0.03
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (47 bp):
ATATAATTCGATAACCTTTTATATAATTTTGATTTTAAATACCTTTA
Found at i:4857828 original size:21 final size:20
Alignment explanation
Indices: 4857735--4857845 Score: 87
Period size: 20 Copynumber: 5.2 Consensus size: 20
4857725 AAATTTTAAT
*
4857735 TTTGATAACCTTTAATATAA
1 TTTGATAACCTTTGATATAA
** *
4857755 TTCAATAACCTTTTATATAA
1 TTTGATAACCTTTGATATAA
4857775 TTTTGATTTTAAATACCTTTGATATAA
1 -TTTGA---T--A-ACCTTTGATATAA
*
4857802 TTTGATAACCTTTGTTATAA
1 TTTGATAACCTTTGATATAA
* *
4857822 GTTTGATAATCTTTGATAAAA
1 -TTTGATAACCTTTGATATAA
4857843 TTT
1 TTT
4857846 TAGTAATCTT
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
20 32 0.44
21 21 0.29
23 1 0.01
24 1 0.01
26 6 0.08
27 12 0.16
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (20 bp):
TTTGATAACCTTTGATATAA
Found at i:4857852 original size:21 final size:21
Alignment explanation
Indices: 4857791--4857909 Score: 91
Period size: 21 Copynumber: 5.7 Consensus size: 21
4857781 TTTTAAATAC
* *
4857791 CTTTGATATAATTTGA-TAAC
1 CTTTGATATAATTTTAGTAAT
* *
4857811 CTTTGTTATAAGTTT-GATAAT
1 CTTTGATATAATTTTAG-TAAT
*
4857832 CTTTGATAAAATTTTAGTAAT
1 CTTTGATATAATTTTAGTAAT
* * *
4857853 CTTTTATATTATTTTGGTAAT
1 CTTTGATATAATTTTAGTAAT
* * *
4857874 -TTATAATATTATTTTATTAAT
1 CTT-TGATATAATTTTAGTAAT
*
4857895 CTTGGATATAATTTT
1 CTTTGATATAATTTT
4857910 GAAACTTTTT
Statistics
Matches: 77, Mismatches: 17, Indels: 9
0.75 0.17 0.09
Matches are distributed among these distances:
20 14 0.18
21 60 0.78
22 3 0.04
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (21 bp):
CTTTGATATAATTTTAGTAAT
Found at i:4857968 original size:21 final size:21
Alignment explanation
Indices: 4857841--4857975 Score: 80
Period size: 21 Copynumber: 6.3 Consensus size: 21
4857831 TCTTTGATAA
4857841 AATTTTAGTAATCTTTT-ATAT
1 AATTTTAGTAA-CTTTTAATAT
* *
4857862 TATTTTGGTAA-TTTATAATAT
1 AATTTTAGTAACTTT-TAATAT
* * **
4857883 TATTTTATTAA-TCTTGGATAT
1 AATTTTAGTAACT-TTTAATAT
* * *
4857904 AATTTT-GAAACTTTTTATAA
1 AATTTTAGTAACTTTTAATAT
*
4857924 AATTTTGATAATAACTTATTAATAT
1 AA-TTT--TAGTAACTT-TTAATAT
*
4857949 AATTTTAGTAACTTTTAATAC
1 AATTTTAGTAACTTTTAATAT
4857970 AATTTT
1 AATTTT
4857976 TACAAGTTAT
Statistics
Matches: 87, Mismatches: 18, Indels: 18
0.71 0.15 0.15
Matches are distributed among these distances:
19 3 0.03
20 10 0.11
21 48 0.55
22 10 0.11
23 1 0.01
24 8 0.09
25 7 0.08
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.53
Consensus pattern (21 bp):
AATTTTAGTAACTTTTAATAT
Found at i:4858085 original size:21 final size:21
Alignment explanation
Indices: 4858054--4858104 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
4858044 TCTTGGATAC
* *
4858054 AATTTTAATAAAATTTTATGT
1 AATTTTGATAAAATTTTATAT
* **
4858075 GATTTTGATAAGCTTTTATAT
1 AATTTTGATAAAATTTTATAT
4858096 AATTTTGAT
1 AATTTTGAT
4858105 TTTGATAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.53
Consensus pattern (21 bp):
AATTTTGATAAAATTTTATAT
Found at i:4858201 original size:20 final size:21
Alignment explanation
Indices: 4858178--4858227 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4858168 TTTGCTAATA
*
4858178 TTTGATA-AATTTTTATAACC
1 TTTGATATAATTTTGATAACC
*
4858198 TTTGATATAATTTTGATAACTT
1 TTTGATATAATTTTGATAAC-C
4858220 TTTGATAT
1 TTTGATAT
4858228 TATTAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.54
Consensus pattern (21 bp):
TTTGATATAATTTTGATAACC
Found at i:4858259 original size:25 final size:25
Alignment explanation
Indices: 4858231--4858278 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
4858221 TTGATATTAT
*
4858231 TAATATAATTAATATTCAAATAAAC
1 TAATATAATGAATATTCAAATAAAC
* * *
4858256 TAATCTAATGCATATTTAAATAA
1 TAATATAATGAATATTCAAATAA
4858279 CATAGTATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (25 bp):
TAATATAATGAATATTCAAATAAAC
Found at i:4858693 original size:10 final size:10
Alignment explanation
Indices: 4858658--4858685 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4858648 GATTAGTTAT
4858658 TATTATATCA
1 TATTATATCA
4858668 TATTATATCA
1 TATTATATCA
4858678 TATTATAT
1 TATTATAT
4858686 TGTATTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (10 bp):
TATTATATCA
Found at i:4861264 original size:22 final size:22
Alignment explanation
Indices: 4861216--4861290 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 22
4861206 ATTATATCAT
*
4861216 AATTTATATTGATATATTAAATATAA
1 AATTTAT-TT-ATAT-TTTAAT-TAA
4861242 AATTTATTTATATTTTAATT-A
1 AATTTATTTATATTTTAATTAA
* *
4861263 AATTTATGTATAATTTTTATTAA
1 AATTTATTTAT-ATTTTAATTAA
4861286 AATTT
1 AATTT
4861291 TAAACTTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
21 11 0.25
22 9 0.20
23 11 0.25
24 4 0.09
25 2 0.05
26 7 0.16
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.55
Consensus pattern (22 bp):
AATTTATTTATATTTTAATTAA
Found at i:4862279 original size:29 final size:29
Alignment explanation
Indices: 4862246--4862304 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
4862236 TTCCACCTTA
* *
4862246 ATTGCAGCAAGCAAAGGAATCATATAAAT
1 ATTGCAGCAAGCAAAGCAATCACATAAAT
*
4862275 ATTGCAGCAAGCAAAGCAATCGCATAAAT
1 ATTGCAGCAAGCAAAGCAATCACATAAAT
4862304 A
1 A
4862305 GAAAAGGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (29 bp):
ATTGCAGCAAGCAAAGCAATCACATAAAT
Found at i:4864985 original size:18 final size:18
Alignment explanation
Indices: 4864959--4865083 Score: 105
Period size: 18 Copynumber: 6.9 Consensus size: 18
4864949 CTTTGTTCTT
4864959 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
* *
4864977 GATATATTTGA---GGAT
1 GATACATTTGAGGTGGAG
* *
4864992 GATACACTTGTGGTGGAG
1 GATACATTTGAGGTGGAG
* * * *
4865010 GGTACATTTGTGGT-AACT
1 GATACATTTGAGGTGGA-G
4865028 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
*
4865046 GATATATTTGAGGAGGTGGAG
1 GATACATTT---GAGGTGGAG
4865067 GATACATTTGAGGTGGA
1 GATACATTTGAGGTGGA
4865084 TAACCATGAG
Statistics
Matches: 83, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
15 11 0.13
17 1 0.01
18 53 0.64
19 1 0.01
21 17 0.20
ACGTcount: A:0.27, C:0.06, G:0.36, T:0.31
Consensus pattern (18 bp):
GATACATTTGAGGTGGAG
Found at i:4865061 original size:21 final size:21
Alignment explanation
Indices: 4865037--4865079 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
4865027 TGATACATTT
*
4865037 GAGGTGGAGGATATATTTGAG
1 GAGGTGGAGGATACATTTGAG
4865058 GAGGTGGAGGATACATTTGAG
1 GAGGTGGAGGATACATTTGAG
4865079 G
1 G
4865080 TGGATAACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.02, G:0.44, T:0.26
Consensus pattern (21 bp):
GAGGTGGAGGATACATTTGAG
Found at i:4865451 original size:27 final size:26
Alignment explanation
Indices: 4865413--4865463 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
4865403 TCGCACCATC
* *
4865413 ACCATCACCATCATCATCTGGACTTAA
1 ACCACCACCATCATCACCT-GACTTAA
4865440 ACCACCACCATCATCACCTGACTT
1 ACCACCACCATCATCACCTGACTT
4865464 GGTGTTGGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.31, C:0.39, G:0.06, T:0.24
Consensus pattern (26 bp):
ACCACCACCATCATCACCTGACTTAA
Found at i:4868887 original size:26 final size:26
Alignment explanation
Indices: 4868838--4868886 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
4868828 TTTCAAAAAT
*
4868838 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACCTATATTTTAA
4868864 TAAAA-TTTTCAAACCTATATTTT
1 TAAAAGTTTTCAAACCTATATTTT
4868887 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (26 bp):
TAAAAGTTTTCAAACCTATATTTTAA
Found at i:4869415 original size:19 final size:18
Alignment explanation
Indices: 4869393--4869471 Score: 54
Period size: 19 Copynumber: 4.2 Consensus size: 18
4869383 CCCCCCAACA
4869393 TCCCACCACACCCAATCCC
1 TCCCACCACACCCAAT-CC
* *
4869412 TCCCCACCTTC-CTCCAATGC
1 T-CCCACC-ACAC-CCAATCC
4869432 -CCCACCACACCCAATCC
1 TCCCACCACACCCAATCC
* *
4869449 TCCCTACCCCATCCAATCTC
1 TCCC-ACCACACCCAATC-C
4869469 TCC
1 TCC
4869472 ACATGCTTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
17 7 0.15
18 10 0.21
19 12 0.26
20 12 0.26
21 6 0.13
ACGTcount: A:0.22, C:0.59, G:0.01, T:0.18
Consensus pattern (18 bp):
TCCCACCACACCCAATCC
Found at i:4869419 original size:20 final size:20
Alignment explanation
Indices: 4869338--4869419 Score: 55
Period size: 20 Copynumber: 4.2 Consensus size: 20
4869328 CATACACCAT
4869338 ACCACACCCAATCCCTCCCC
1 ACCACACCCAATCCCTCCCC
* * *
4869358 ACTCCCA-TCAATCCCTCTCC
1 AC-CACACCCAATCCCTCCCC
* * *
4869378 ACCTTCCCCCCAA--CAT-CCC
1 ACC--ACACCCAATCCCTCCCC
4869397 ACCACACCCAATCCCTCCCC
1 ACCACACCCAATCCCTCCCC
4869417 ACC
1 ACC
4869420 TTCCTCCAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 14
0.65 0.14 0.20
Matches are distributed among these distances:
17 6 0.13
19 8 0.18
20 23 0.51
21 5 0.11
22 3 0.07
ACGTcount: A:0.23, C:0.62, G:0.00, T:0.15
Consensus pattern (20 bp):
ACCACACCCAATCCCTCCCC
Found at i:4869445 original size:38 final size:39
Alignment explanation
Indices: 4869366--4869452 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 39
4869356 CCACTCCCAT
* *
4869366 CAATCCCTCTCCACCTTCCCCCCAACATCCCACCACACC
1 CAATCCCTCCCCACCTTCCCCCCAACACCCCACCACACC
* **
4869405 CAATCCCTCCCCACCTT-CCTCCAATGCCCCACCACACC
1 CAATCCCTCCCCACCTTCCCCCCAACACCCCACCACACC
4869443 CAAT-CCTCCC
1 CAATCCCTCCC
4869453 TACCCCATCC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
37 6 0.14
38 21 0.49
39 16 0.37
ACGTcount: A:0.22, C:0.61, G:0.01, T:0.16
Consensus pattern (39 bp):
CAATCCCTCCCCACCTTCCCCCCAACACCCCACCACACC
Found at i:4874098 original size:24 final size:24
Alignment explanation
Indices: 4874071--4874120 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
4874061 CCTATTTCCC
* *
4874071 CTCCTCTCACGAATCTGTCAGCTT
1 CTCCACTCACGAATCTGTCAACTT
* *
4874095 CTCCACTCAGGTATCTGTCAACTT
1 CTCCACTCACGAATCTGTCAACTT
4874119 CT
1 CT
4874121 TCGTCAAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.18, C:0.36, G:0.12, T:0.34
Consensus pattern (24 bp):
CTCCACTCACGAATCTGTCAACTT
Found at i:4877823 original size:5 final size:5
Alignment explanation
Indices: 4877808--4877836 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
4877798 ATAGCATACG
4877808 AAAAT -AAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
4877837 GACATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:4882206 original size:59 final size:59
Alignment explanation
Indices: 4882126--4882416 Score: 399
Period size: 60 Copynumber: 4.9 Consensus size: 59
4882116 CTAAAAAATA
4882126 TTTTTGAGAAAAAGTT-AAAGTATCAA-TTTTCTTTAAAAATAAATTTTCAAAAAAAGTTT
1 TTTTTGAG-AAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAATTTTCAAAAAAAGTTT
* *
4882185 TTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTAAAAAAAAG-TT
1 TTTTTGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTCAAAAAAAGTTT
* *
4882244 TTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGATT
1 TTTTTGAG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGTTT
* * * *
4882304 TTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTCTAAAAAAAATAT
1 TTTTTGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC-AAAAAAAGTTT
* * * * *
4882364 TTTTGGGGAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAA
1 TTTTTGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAA
4882417 TGGATTTTCC
Statistics
Matches: 210, Mismatches: 16, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
58 7 0.03
59 92 0.44
60 111 0.53
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.39
Consensus pattern (59 bp):
TTTTTGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGTTT
Found at i:4882424 original size:119 final size:119
Alignment explanation
Indices: 4882106--4882416 Score: 479
Period size: 119 Copynumber: 2.6 Consensus size: 119
4882096 TCAATTTTCT
* * *
4882106 AATAAGCTTTCT--AAAAAATATTTTT-GAGAAAAAGTT-AAAGTATCAATTTTCTTTAAAAATA
1 AATAAGTTTTCTAAAAAAAATATTTTTGGGGAAAAA-TTGAAAGTATCAATTTTCCTTAAAAATA
*
4882167 AATTTTCAAAAAAAGTTTTTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTAAA
65 AATTTTCAAAAAAAGATTTTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTAAA
* * * * *
4882222 AATAAATTTT-TAAAAAAAAGTTTTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTAAAAATA
1 AATAAGTTTTCTAAAAAAAA-TATTTTTGGGGAAAAATTGAAAGTATCAATTTTCCTTAAAAATA
4882286 AATTTTCAAAAAAAGATTTTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTAAA
65 AATTTTCAAAAAAAGATTTTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTAAA
4882341 AATAAGTTTTCTAAAAAAAATATTTTTGGGGAAAAATTGAAAGTATCAATTTTCCTTAAAAATAA
1 AATAAGTTTTCTAAAAAAAATATTTTTGGGGAAAAATTGAAAGTATCAATTTTCCTTAAAAATAA
*
4882406 GTTTTCAAAAA
66 ATTTTCAAAAA
4882417 TGGATTTTCC
Statistics
Matches: 174, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
115 1 0.01
116 8 0.05
117 6 0.03
118 8 0.05
119 142 0.82
120 9 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (119 bp):
AATAAGTTTTCTAAAAAAAATATTTTTGGGGAAAAATTGAAAGTATCAATTTTCCTTAAAAATAA
ATTTTCAAAAAAAGATTTTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTAAA
Found at i:4883836 original size:3 final size:3
Alignment explanation
Indices: 4883828--4883857 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4883818 ATTTATTTAT
4883828 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4883858 ATCTTAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4883905 original size:10 final size:11
Alignment explanation
Indices: 4883890--4883937 Score: 64
Period size: 10 Copynumber: 4.5 Consensus size: 11
4883880 TTAGAATTCG
4883890 TTTAT-ATTTA
1 TTTATAATTTA
4883900 TTTATAATTTA
1 TTTATAATTTA
4883911 -TTATAATTTA
1 TTTATAATTTA
*
4883921 TTTATATATATA
1 TTTATA-ATTTA
4883933 TTTAT
1 TTTAT
4883938 GAATATATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
10 15 0.44
11 10 0.29
12 9 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTATAATTTA
Found at i:4885408 original size:19 final size:19
Alignment explanation
Indices: 4885352--4885408 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
4885342 ATTTCATTTG
*
4885352 AAATATTATTATATTATAAAA
1 AAATATTA-AATATTA-AAAA
* * *
4885373 AAATTATTTAATTTTAAATA
1 AAA-TATTAAATATTAAAAA
4885393 AAATATTAAATATTAA
1 AAATATTAAATATTAA
4885409 CATTAAGAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
19 11 0.38
20 6 0.21
21 8 0.28
22 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATATTAAATATTAAAAA
Found at i:4886214 original size:17 final size:18
Alignment explanation
Indices: 4886173--4886224 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 18
4886163 GTTTAGAGGA
4886173 TGAAAATAATTTTTGTTTATT
1 TGAAAAT-A-TTTT-TTTATT
4886194 TGAAAATATTTTTTT-TT
1 TGAAAATATTTTTTTATT
*
4886211 TGAAAAGATTTTTT
1 TGAAAATATTTTTT
4886225 ATTATTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 15 0.50
18 3 0.10
19 4 0.13
20 1 0.03
21 7 0.23
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.58
Consensus pattern (18 bp):
TGAAAATATTTTTTTATT
Found at i:4886392 original size:16 final size:16
Alignment explanation
Indices: 4886382--4886418 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
4886372 AAAAATAGGT
4886382 TAAAAATAAAATAAAA
1 TAAAAATAAAATAAAA
4886398 TAAAAATAAAATGAAAA
1 TAAAAATAAAAT-AAAA
4886415 -AAAA
1 TAAAA
4886419 CCTACGATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (16 bp):
TAAAAATAAAATAAAA
Found at i:4887424 original size:3 final size:3
Alignment explanation
Indices: 4887382--4887412 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4887372 GTAGTAGTAG
4887382 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
4887413 TCTTTATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4887484 original size:26 final size:26
Alignment explanation
Indices: 4887455--4887513 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
4887445 CATAAAAGTG
* * * *
4887455 CCTAATTTGACCCAGACACAAATGGC
1 CCTAATTGGACCAAGACACAAACGGA
*
4887481 CCTAATTGGGCCAAGACACAAACGGA
1 CCTAATTGGACCAAGACACAAACGGA
4887507 CCTAATT
1 CCTAATT
4887514 AAGCTCAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.36, C:0.29, G:0.17, T:0.19
Consensus pattern (26 bp):
CCTAATTGGACCAAGACACAAACGGA
Found at i:4888768 original size:19 final size:20
Alignment explanation
Indices: 4888746--4888797 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 20
4888736 GAATTTTCTA
*
4888746 ATTTTTTTTATATATT-ATT
1 ATTTTTTTTATATATTAAGT
4888765 ATTTTTTTTAT-T-TTAAGT
1 ATTTTTTTTATATATTAAGT
4888783 ATTTTTTTT-TATATT
1 ATTTTTTTTATATATT
4888798 TATGCATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 3 0.10
18 13 0.45
19 13 0.45
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (20 bp):
ATTTTTTTTATATATTAAGT
Found at i:4888778 original size:36 final size:37
Alignment explanation
Indices: 4888728--4888800 Score: 87
Period size: 38 Copynumber: 1.9 Consensus size: 37
4888718 GTAAAAAATT
4888728 TTTTTTTTGAATTTT-CTAATTTTTTTTATATATTATTA
1 TTTTTTTT-AATTTTACTAATTTTTTTTATAT-TTATTA
* *
4888766 TTTTTTTT-ATTTTAAGTATTTTTTTTTATATTTAT
1 TTTTTTTTAATTTT-ACTAATTTTTTTTATATTTAT
4888801 GCATGATAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 5 0.16
37 4 0.13
38 22 0.71
ACGTcount: A:0.22, C:0.01, G:0.03, T:0.74
Consensus pattern (37 bp):
TTTTTTTTAATTTTACTAATTTTTTTTATATTTATTA
Found at i:4889205 original size:31 final size:31
Alignment explanation
Indices: 4889169--4889235 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
4889159 CCTTAACACT
4889169 AACCCAAAAAATCCAAAATCCCTT-AAATCCA
1 AACCCAAAAAATCCAAAA-CCCTTAAAATCCA
* *
4889200 AACCCATAAAATCCGAAACCCTTAAAATCCA
1 AACCCAAAAAATCCAAAACCCTTAAAATCCA
4889231 AACCC
1 AACCC
4889236 TTAAATCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 5 0.15
31 28 0.85
ACGTcount: A:0.49, C:0.34, G:0.01, T:0.15
Consensus pattern (31 bp):
AACCCAAAAAATCCAAAACCCTTAAAATCCA
Found at i:4889213 original size:15 final size:16
Alignment explanation
Indices: 4889169--4889232 Score: 69
Period size: 16 Copynumber: 4.1 Consensus size: 16
4889159 CCTTAACACT
*
4889169 AACCCAAAAAATCCAA
1 AACCCATAAAATCCAA
*
4889185 AATCCC-TTAAATCC-A
1 AA-CCCATAAAATCCAA
*
4889200 AACCCATAAAATCCGA
1 AACCCATAAAATCCAA
*
4889216 AACCCTTAAAATCCAA
1 AACCCATAAAATCCAA
4889232 A
1 A
4889233 CCCTTAAATC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 3 0.08
15 10 0.25
16 24 0.60
17 3 0.08
ACGTcount: A:0.52, C:0.31, G:0.02, T:0.16
Consensus pattern (16 bp):
AACCCATAAAATCCAA
Found at i:4889235 original size:15 final size:16
Alignment explanation
Indices: 4889176--4889240 Score: 82
Period size: 15 Copynumber: 4.2 Consensus size: 16
4889166 ACTAACCCAA
4889176 AAAATCCAAAATCCCTT
1 AAAATCCAAAA-CCCTT
*
4889193 -AAATCC-AAACCCAT
1 AAAATCCAAAACCCTT
*
4889207 AAAATCCGAAACCCTT
1 AAAATCCAAAACCCTT
4889223 AAAATCC-AAACCCTT
1 AAAATCCAAAACCCTT
4889238 AAA
1 AAA
4889241 TCAAAACTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.09
15 20 0.45
16 20 0.45
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAATCCAAAACCCTT
Found at i:4901857 original size:10 final size:10
Alignment explanation
Indices: 4901850--4901877 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4901840 AGATAATACA
4901850 ATATAATATG
1 ATATAATATG
4901860 ATATAATATG
1 ATATAATATG
4901870 ATATAATA
1 ATATAATA
4901878 ATAACTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (10 bp):
ATATAATATG
Found at i:4902297 original size:25 final size:25
Alignment explanation
Indices: 4902255--4902302 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
4902245 AAATACTATG
*
4902255 TTATTTAAATATGCATTAGATTAGT
1 TTATTTAAATATGAATTAGATTAGT
* * *
4902280 TTATTTGAATATTAATTATATTA
1 TTATTTAAATATGAATTAGATTA
4902303 ATAATATCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (25 bp):
TTATTTAAATATGAATTAGATTAGT
Found at i:4902345 original size:20 final size:21
Alignment explanation
Indices: 4902306--4902355 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4902296 TATATTAATA
*
4902306 ATATCAAAAAGTTATCAAAATT
1 ATATC-AAAAGTTATAAAAATT
*
4902328 ATATCAAAGGTTATAAAAATT
1 ATATCAAAAGTTATAAAAATT
4902349 -TATCAAA
1 ATATCAAA
4902356 TATTAGCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 7 0.27
21 14 0.54
22 5 0.19
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.32
Consensus pattern (21 bp):
ATATCAAAAGTTATAAAAATT
Found at i:4902526 original size:21 final size:21
Alignment explanation
Indices: 4902473--4902526 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
4902463 AAAATTTTAT
*
4902473 TAAAATTGTATCCAAGAGTAA
1 TAAAATTCTATCCAAGAGTAA
* * * *
4902494 TAAGATTCTATCTAAGATTAC
1 TAAAATTCTATCCAAGAGTAA
*
4902515 TAAAATTTTATC
1 TAAAATTCTATC
4902527 AATGATCGCC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (21 bp):
TAAAATTCTATCCAAGAGTAA
Found at i:4902596 original size:22 final size:21
Alignment explanation
Indices: 4902558--4902692 Score: 80
Period size: 21 Copynumber: 6.3 Consensus size: 21
4902548 ATAACTTGTA
*
4902558 AAAATTGTATTAAAAGTTACT
1 AAAATTATATTAAAAGTTACT
*
4902579 AAAATTATATTAATAAGTTATTAT
1 AAAATTATATTAA-AAGTTA--CT
* * *
4902603 CAAAATTTTATAAAAAGTTTC-
1 -AAAATTATATTAAAAGTTACT
** *
4902624 AAAATTATA-TCCAAGATTAAT
1 AAAATTATATTAAAAG-TTACT
* *
4902645 AAAATAATATTATAAA-TTACC
1 AAAATTATATTA-AAAGTTACT
*
4902666 AAAATAATA-TAAAAGATTACT
1 AAAATTATATTAAAAG-TTACT
4902687 AAAATT
1 AAAATT
4902693 TTATCAAAGA
Statistics
Matches: 85, Mismatches: 19, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
19 6 0.07
20 12 0.14
21 41 0.48
22 7 0.08
23 2 0.02
24 6 0.07
25 11 0.13
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.36
Consensus pattern (21 bp):
AAAATTATATTAAAAGTTACT
Found at i:4902684 original size:21 final size:21
Alignment explanation
Indices: 4902636--4902710 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 21
4902626 AATTATATCC
** *
4902636 AAGATTAATAAAATAATATTAT
1 AAGATTACCAAAATAATA-TAA
4902658 AA-ATTACCAAAATAATATAA
1 AAGATTACCAAAATAATATAA
* ** *
4902678 AAGATTACTAAAATTTTATCA
1 AAGATTACCAAAATAATATAA
*
4902699 AAGATTATCAAA
1 AAGATTACCAAA
4902711 CTTATAACAA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
20 4 0.09
21 37 0.86
22 2 0.05
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.32
Consensus pattern (21 bp):
AAGATTACCAAAATAATATAA
Found at i:4902721 original size:21 final size:20
Alignment explanation
Indices: 4902677--4902742 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 20
4902667 AAATAATATA
* * *
4902677 AAAGATTACTAAAATTTTATC
1 AAAGATTA-TCAAATTATAAC
4902698 AAAGATTATCAAACTTATAAC
1 AAAGATTATCAAA-TTATAAC
* *
4902719 AAAGGTTATCAAATTATATC
1 AAAGATTATCAAATTATAAC
4902739 AAAG
1 AAAG
4902743 GTATTTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
20 14 0.36
21 25 0.64
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (20 bp):
AAAGATTATCAAATTATAAC
Found at i:4902741 original size:20 final size:20
Alignment explanation
Indices: 4902688--4902797 Score: 87
Period size: 20 Copynumber: 5.2 Consensus size: 20
4902678 AAGATTACTA
* *
4902688 AAATTTTATCAAAGATTATC
1 AAATTATATCAAAGGTTATC
*
4902708 AAACTTATAACAAAGGTTATC
1 AAA-TTATATCAAAGGTTATC
4902729 AAATTATATCAAAGGTATTTAAAATC
1 AAATTATATCAAAGG---TT---ATC
*
4902755 AAAATTATAT-AAAGGTTATT
1 -AAATTATATCAAAGGTTATC
* *
4902775 GAATTATATTAAAGGTTATC
1 AAATTATATCAAAGGTTATC
4902795 AAA
1 AAA
4902798 ATTAAAATTT
Statistics
Matches: 73, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
19 8 0.11
20 27 0.37
21 17 0.23
23 4 0.05
26 8 0.11
27 9 0.12
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.35
Consensus pattern (20 bp):
AAATTATATCAAAGGTTATC
Found at i:4902780 original size:46 final size:47
Alignment explanation
Indices: 4902705--4902835 Score: 133
Period size: 46 Copynumber: 2.8 Consensus size: 47
4902695 ATCAAAGATT
* * * *
4902705 ATCAAACTTATAACAAAGGTTATCAAATTATATCAAAGG-TATTTAAA
1 ATCAAAATTATAATAAAGGTTATCGAATTATATCAAAGGTTA-TCAAA
* *
4902752 ATCAAAATTAT-ATAAAGGTTATTGAATTATATTAAAGGTTATCAAA
1 ATCAAAATTATAATAAAGGTTATCGAATTATATCAAAGGTTATCAAA
* * *
4902798 ATTAAAATT-TCATTAAAAGTTATCGAAATTATATCAAA
1 ATCAAAATTAT-AATAAAGGTTATCG-AATTATATCAAA
4902836 ACTTACCAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 35 0.51
47 22 0.32
48 11 0.16
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (47 bp):
ATCAAAATTATAATAAAGGTTATCGAATTATATCAAAGGTTATCAAA
Found at i:4902836 original size:21 final size:21
Alignment explanation
Indices: 4902812--4903019 Score: 104
Period size: 21 Copynumber: 10.0 Consensus size: 21
4902802 AAATTTCATT
*
4902812 AAAAGTTATCGAAATTATATC
1 AAAAGTTATCAAAATTATATC
* *
4902833 AAAACTTACCAAAATTATATCC
1 AAAAGTTATCAAAATTATAT-C
*
4902855 AATA-TTATCAAAATTATATC
1 AAAAGTTATCAAAATTATATC
* ** * *
4902875 ATAAGTTATCTCAATTGTATT
1 AAAAGTTATCAAAATTATATC
* * ** *
4902896 AAAAATTACCCTAATTATATT
1 AAAAGTTATCAAAATTATATC
** * *
4902917 ATGA-TTA-CAAAAATTTTGTC
1 AAAAGTTATC-AAAATTATATC
* * *
4902937 AAAACTTACCAAAATTGTATC
1 AAAAGTTATCAAAATTATATC
* *
4902958 -AATGTTTATTAAAATTATATC
1 AAAAG-TTATCAAAATTATATC
*
4902979 ATAAA-TTA-CTAAAATAATATC
1 A-AAAGTTATC-AAAATTATATC
*
4903000 AAAATTTATCAAAATTATAT
1 AAAAGTTATCAAAATTATAT
4903020 AATAAGTCAC
Statistics
Matches: 139, Mismatches: 37, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
19 1 0.01
20 19 0.14
21 111 0.80
22 6 0.04
23 2 0.01
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.38
Consensus pattern (21 bp):
AAAAGTTATCAAAATTATATC
Found at i:4902993 original size:42 final size:42
Alignment explanation
Indices: 4902942--4903033 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
4902932 TTGTCAAAAC
** ** * *
4902942 TTACCAAAATTGTATCAATGTTTATTAAAATTATATCATAAA
1 TTACCAAAATAATATCAAAATTTATCAAAATTATATAATAAA
* *
4902984 TTACTAAAATAATATCAAAATTTATCAAAATTATATAATAAG
1 TTACCAAAATAATATCAAAATTTATCAAAATTATATAATAAA
*
4903026 TCACCAAA
1 TTACCAAA
4903034 CTTTTATTAT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (42 bp):
TTACCAAAATAATATCAAAATTTATCAAAATTATATAATAAA
Found at i:4903016 original size:104 final size:104
Alignment explanation
Indices: 4902831--4903019 Score: 238
Period size: 104 Copynumber: 1.8 Consensus size: 104
4902821 CGAAATTATA
* * ** *
4902831 TCAAAACTTACCAAAATTATATCCAATATTATCAAAATTATATCATAAGTTATCTCAATTGTATT
1 TCAAAACTTACCAAAATTATATCCAATATTATCAAAATTATATCATAAATTATCTAAATAATATC
**
4902896 AAAAATTACCCTAATTATATTATGATTACAAAAATTTTG
66 AAAAATTACCAAAATTATATTATGATTACAAAAATTTTG
* * *
4902935 TCAAAACTTACCAAAATTGTAT-CAATGTTTATTAAAATTATATCATAAATTA-CTAAAATAATA
1 TCAAAACTTACCAAAATTATATCCAAT-ATTATCAAAATTATATCATAAATTATCT-AAATAATA
* *
4902998 TCAAAATTTATCAAAATTATAT
64 TCAAAAATTACCAAAATTATAT
4903020 AATAAGTCAC
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
103 6 0.08
104 65 0.92
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (104 bp):
TCAAAACTTACCAAAATTATATCCAATATTATCAAAATTATATCATAAATTATCTAAATAATATC
AAAAATTACCAAAATTATATTATGATTACAAAAATTTTG
Found at i:4906904 original size:19 final size:19
Alignment explanation
Indices: 4906880--4906917 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4906870 AGCTTCACGG
4906880 CCCATCTATATGTTGCTTT
1 CCCATCTATATGTTGCTTT
4906899 CCCATCTATATGTTGCTTT
1 CCCATCTATATGTTGCTTT
4906918 AAATCGGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.11, T:0.47
Consensus pattern (19 bp):
CCCATCTATATGTTGCTTT
Found at i:4907486 original size:29 final size:29
Alignment explanation
Indices: 4907451--4907509 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
4907441 GTCATTTTGC
4907451 TTGCACTTTCCTAGGCAGTTTCTTTTTCT
1 TTGCACTTTCCTAGGCAGTTTCTTTTTCT
4907480 TTGCACTTTCCTAGGCAGTTTCTTTTTCT
1 TTGCACTTTCCTAGGCAGTTTCTTTTTCT
4907509 T
1 T
4907510 ACTTTTTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.10, C:0.24, G:0.14, T:0.53
Consensus pattern (29 bp):
TTGCACTTTCCTAGGCAGTTTCTTTTTCT
Found at i:4921936 original size:15 final size:15
Alignment explanation
Indices: 4921916--4921944 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4921906 ACTATAAAAC
4921916 AAAATAATAATTATG
1 AAAATAATAATTATG
4921931 AAAATAATAATTAT
1 AAAATAATAATTAT
4921945 TAATAATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
AAAATAATAATTATG
Found at i:4921958 original size:7 final size:7
Alignment explanation
Indices: 4921947--4921984 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
4921937 ATAATTATTA
4921947 ATAATAT
1 ATAATAT
*
4921954 CTAAT-T
1 ATAATAT
4921960 ATAAATAT
1 AT-AATAT
4921968 ATAATAT
1 ATAATAT
4921975 ATAATAT
1 ATAATAT
4921982 ATA
1 ATA
4921985 TTTATTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 2 0.07
7 22 0.81
8 3 0.11
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (7 bp):
ATAATAT
Found at i:4922975 original size:22 final size:22
Alignment explanation
Indices: 4922947--4922991 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4922937 AATAATAGAT
**
4922947 AAATTTTTTAAAAAAATAATTA
1 AAATTTTAAAAAAAAATAATTA
*
4922969 AAATTTTAAAAAAAAATTATTA
1 AAATTTTAAAAAAAAATAATTA
4922991 A
1 A
4922992 TGAGTTGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAATTTTAAAAAAAAATAATTA
Found at i:4926476 original size:24 final size:24
Alignment explanation
Indices: 4926441--4926492 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
4926431 AGTAATACTA
*
4926441 AACTAACGGTTAATTGGTAGTTAT
1 AACTAACAGTTAATTGGTAGTTAT
4926465 AACTAACAGTTAATTGGTAGTTAT
1 AACTAACAGTTAATTGGTAGTTAT
4926489 AACT
1 AACT
4926493 CTTTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (24 bp):
AACTAACAGTTAATTGGTAGTTAT
Found at i:4930672 original size:27 final size:27
Alignment explanation
Indices: 4930642--4930697 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
4930632 GAATTTTAAC
* * *
4930642 GAAGCAGCTGACAGATTCGAGGGAGGA
1 GAAGAAGCTAACAGATTCGAGAGAGGA
* *
4930669 GAAGAAGTTAACAGATTCGTGAGAGGA
1 GAAGAAGCTAACAGATTCGAGAGAGGA
4930696 GA
1 GA
4930698 GGAAATAGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.11, G:0.38, T:0.14
Consensus pattern (27 bp):
GAAGAAGCTAACAGATTCGAGAGAGGA
Found at i:4943258 original size:17 final size:16
Alignment explanation
Indices: 4943236--4943276 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
4943226 AATTATAAAA
*
4943236 ATAATTAATTATCTGTT
1 ATAATTAATTA-ATGTT
4943253 ATAATTAATTAATGTT
1 ATAATTAATTAATGTT
4943269 ATATATTA
1 ATA-ATTA
4943277 TATATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (16 bp):
ATAATTAATTAATGTT
Found at i:4943370 original size:12 final size:12
Alignment explanation
Indices: 4943353--4943380 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4943343 AACGTTCTTC
4943353 TTTTATTTATTA
1 TTTTATTTATTA
4943365 TTTTATTTATTA
1 TTTTATTTATTA
4943377 TTTT
1 TTTT
4943381 TTAAAAGATC
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:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTATTTATTA
Found at i:4944326 original size:221 final size:219
Alignment explanation
Indices: 4943897--4944326 Score: 519
Period size: 221 Copynumber: 2.0 Consensus size: 219
4943887 ATGTTGTGAC
* *
4943897 AATTTTAAATGTAATAAAAGTAAAAATAGATATAAAAAATATTATTATAACATAAATAATTAAAT
1 AATTCTAAACGTAATAAAAGTAAAAATAGATATAAAAAATATTATTATAACATAAATAATTAAAT
* * * *** *
4943962 TGATAATGTAAAAAATTAATATATTAAATTTAAATAATAATTATAAACTAATAAATAAATATTAA
66 TAACAAAGTAAAAAATTAATATATTAAAACCAAAGAATAATTATAAACTAATAAATAAATATTAA
* * *
4944027 TGTAAAAATATAAGAATTATCATAAATTTGATATCTTTTAGCATAAAATATGTTATAAATATTGT
131 TGTAAAAATATAAAAATTATCATAAAATTGATATCTTTTAGCATAAAATATGTTAGAAATATTGT
*
4944092 AATATCCTAAGAAAGTATTATAAT
196 AACATCCTAAGAAAGTATTATAAT
* * **
4944116 AATTCTAAACGTAATAAAAGTAAAAATTA-ATGTAAAAAGATATTATTGTAATGTAAATAATTAA
1 AATTCTAAACGTAATAAAAGTAAAAA-TAGATATAAAAA-ATATTATTATAACATAAATAATTAA
* * * * *
4944180 ATTAACAAAGTAAATGAATTATTACT-TTAAAACCAAAGAATATTTCTAAGCTAATAAATAAATA
64 ATTAACAAAGTAAA-AAATTAATA-TATTAAAACCAAAGAATAATTATAAACTAATAAATAAATA
* * *
4944244 TTAATGTAAAAA-AGTAAAAATTATCATAAAATTGATAT-TATTT-GACATCAAATGTGTTAGAT
127 TTAATGTAAAAATA-TAAAAATTATCATAAAATTGATATCT-TTTAG-CATAAAATATGTTAGAA
* *
4944306 ATGTTGTAACATCTTAAGAAA
189 ATATTGTAACATCCTAAGAAA
4944327 AAATTGTCAT
Statistics
Matches: 177, Mismatches: 27, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
219 32 0.18
220 38 0.21
221 106 0.60
222 1 0.01
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (219 bp):
AATTCTAAACGTAATAAAAGTAAAAATAGATATAAAAAATATTATTATAACATAAATAATTAAAT
TAACAAAGTAAAAAATTAATATATTAAAACCAAAGAATAATTATAAACTAATAAATAAATATTAA
TGTAAAAATATAAAAATTATCATAAAATTGATATCTTTTAGCATAAAATATGTTAGAAATATTGT
AACATCCTAAGAAAGTATTATAAT
Found at i:4954669 original size:123 final size:123
Alignment explanation
Indices: 4954484--4954706 Score: 358
Period size: 123 Copynumber: 1.8 Consensus size: 123
4954474 AACAAAATAG
* *
4954484 TGGGCACCTAATCATGTACTACAGCCAGATGGAGTTTAATTAAATTAGTTTTGATATATCTAAAT
1 TGGGCACCTAATCACGTACTACAGCCAGATGGAGTTTAATTAAATTAGTTTTGAGATATCTAAAT
* * *
4954549 GACCATTCATGAGTGTACGGTTTGTAATAGGCAGAGTAAGGCAGAGTCAACAGAAGGC
66 GACCATTCATGAGTGCACAGCTTGTAATAGGCAGAGTAAGGCAGAGTCAACAGAAGGC
*
4954607 TGGGCACCTAATCACGTACTACAG-CTGTATGGAGTTTAATTAAATTAGTTTTGAGATATCTAAA
1 TGGGCACCTAATCACGTACTACAGCCAG-ATGGAGTTTAATTAAATTAGTTTTGAGATATCTAAA
* *
4954671 TGACCTTTCATGAGTGCACAGCTTGTAATGGGCAGA
65 TGACCATTCATGAGTGCACAGCTTGTAATAGGCAGA
4954707 AAGAGCCAGA
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
122 2 0.02
123 89 0.98
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (123 bp):
TGGGCACCTAATCACGTACTACAGCCAGATGGAGTTTAATTAAATTAGTTTTGAGATATCTAAAT
GACCATTCATGAGTGCACAGCTTGTAATAGGCAGAGTAAGGCAGAGTCAACAGAAGGC
Found at i:4960034 original size:32 final size:31
Alignment explanation
Indices: 4959998--4960071 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 31
4959988 AGGTATTGAT
*
4959998 TTTTTGATATTTTGTTATT-ATTTTATATTTAA
1 TTTTTGATATTTT-TTATTAATTAT-TATTTAA
*
4960030 TTTTTGATAAATTTTTATTAATTATTATTTAA
1 TTTTTGAT-ATTTTTTATTAATTATTATTTAA
*
4960062 TTTGTGATAT
1 TTTTTGATAT
4960072 CAAATTTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 1 0.03
32 27 0.75
33 8 0.22
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (31 bp):
TTTTTGATATTTTTTATTAATTATTATTTAA
Found at i:4966264 original size:2 final size:2
Alignment explanation
Indices: 4966257--4966282 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4966247 AGAAGCACCC
4966257 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
4966283 TTGGCTTATA
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:4970563 original size:46 final size:47
Alignment explanation
Indices: 4970488--4970577 Score: 146
Period size: 46 Copynumber: 1.9 Consensus size: 47
4970478 GAACTAGTTC
*
4970488 TACGACCCTGGCTAACGGGTAATAGTAGTTAGCAAAGA-CATGATCA
1 TACGACCCTGGCTAACGGGTAATAATAGTTAGCAAAGATCATGATCA
* *
4970534 TACGACCCTGGCTAACGGGTTATAATAGTTAGCAATGATCATGA
1 TACGACCCTGGCTAACGGGTAATAATAGTTAGCAAAGATCATGA
4970578 GAATGAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 35 0.88
47 5 0.12
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (47 bp):
TACGACCCTGGCTAACGGGTAATAATAGTTAGCAAAGATCATGATCA
Found at i:4980466 original size:22 final size:22
Alignment explanation
Indices: 4980441--4980483 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4980431 ATTGTCTATT
* *
4980441 TTAATTTTAGGGATACAAATAC
1 TTAATTCTAGAGATACAAATAC
4980463 TTAATTCTAGAGATACAAATA
1 TTAATTCTAGAGATACAAATA
4980484 TAAATATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (22 bp):
TTAATTCTAGAGATACAAATAC
Found at i:4981301 original size:12 final size:12
Alignment explanation
Indices: 4981284--4981313 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
4981274 ATAGGGTATT
4981284 TGCAAGTTTACA
1 TGCAAGTTTACA
4981296 TGCAAGTTTACA
1 TGCAAGTTTACA
4981308 TGCAAG
1 TGCAAG
4981314 CTTCCTAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (12 bp):
TGCAAGTTTACA
Found at i:4984411 original size:22 final size:22
Alignment explanation
Indices: 4984386--4984427 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
4984376 TTGTCTATCC
*
4984386 TAATTTTAGGGATACAAATACT
1 TAATTTTAGAGATACAAATACT
4984408 TAATTTTAGAGATACAAATA
1 TAATTTTAGAGATACAAATA
4984428 TAAATATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (22 bp):
TAATTTTAGAGATACAAATACT
Found at i:4986528 original size:27 final size:27
Alignment explanation
Indices: 4986498--4986630 Score: 203
Period size: 27 Copynumber: 4.9 Consensus size: 27
4986488 CTGGGATTAT
** * *
4986498 TGGGATTTTTGGGATTGCTGGTATTTG
1 TGGGATTGCTGGGATTTCTGGAATTTG
* *
4986525 TGGGATTGCCGGAATTTCTGGAATTTG
1 TGGGATTGCTGGGATTTCTGGAATTTG
4986552 TGGGATTGCTGGGATTTCTGGAATTTG
1 TGGGATTGCTGGGATTTCTGGAATTTG
*
4986579 TGGGATTGCTGGGATTTCTGGAATTCG
1 TGGGATTGCTGGGATTTCTGGAATTTG
4986606 TGGGATTGCTGGGATTTCTGGAATT
1 TGGGATTGCTGGGATTTCTGGAATT
4986631 GGTATGGTGA
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.15, C:0.08, G:0.36, T:0.41
Consensus pattern (27 bp):
TGGGATTGCTGGGATTTCTGGAATTTG
Found at i:4986549 original size:9 final size:9
Alignment explanation
Indices: 4986488--4986626 Score: 111
Period size: 9 Copynumber: 15.4 Consensus size: 9
4986478 CCTGGCACTA
4986488 CTGGGATTAT
1 CTGGGATT-T
4986498 -TGGGATTT
1 CTGGGATTT
* *
4986506 TTGGGATTG
1 CTGGGATTT
*
4986515 CTGGTATTT
1 CTGGGATTT
* *
4986524 GTGGGATTG
1 CTGGGATTT
* *
4986533 CCGGAATTT
1 CTGGGATTT
*
4986542 CTGGAATTT
1 CTGGGATTT
* *
4986551 GTGGGATTG
1 CTGGGATTT
4986560 CTGGGATTT
1 CTGGGATTT
*
4986569 CTGGAATTT
1 CTGGGATTT
* *
4986578 GTGGGATTG
1 CTGGGATTT
4986587 CTGGGATTT
1 CTGGGATTT
*
4986596 CT-GGAATT
1 CTGGGATTT
*
4986604 CGTGGGATTG
1 C-TGGGATTT
4986614 CTGGGATTT
1 CTGGGATTT
4986623 CTGG
1 CTGG
4986627 AATTGGTATG
Statistics
Matches: 99, Mismatches: 27, Indels: 7
0.74 0.20 0.05
Matches are distributed among these distances:
8 7 0.07
9 87 0.88
10 5 0.05
ACGTcount: A:0.14, C:0.09, G:0.37, T:0.40
Consensus pattern (9 bp):
CTGGGATTT
Found at i:4996170 original size:25 final size:25
Alignment explanation
Indices: 4996142--4996190 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
4996132 GTATATGTAG
*
4996142 AAATCTAATTCTCCTACATTAGTGC
1 AAATCCAATTCTCCTACATTAGTGC
4996167 AAATCCAATTCTCCTACATTAGTG
1 AAATCCAATTCTCCTACATTAGTG
4996191 TAGCTTGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (25 bp):
AAATCCAATTCTCCTACATTAGTGC
Found at i:4996213 original size:54 final size:54
Alignment explanation
Indices: 4996149--4996253 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
4996139 TAGAAATCTA
* *
4996149 ATTCTCCTACATTAGTGCAAATCCAATTCTCCTACATTAGTGTAGCTTGATATG
1 ATTCTCCTACATTAGTGCAAATCCAATTCTCCTACATTACTGCAGCTTGATATG
* * ***
4996203 ATTCTCCTACATTAGTGTAGATTTGATTCTCCTACATTACTGCAGCTTGAT
1 ATTCTCCTACATTAGTGCAAATCCAATTCTCCTACATTACTGCAGCTTGAT
4996254 TTCTTAATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (54 bp):
ATTCTCCTACATTAGTGCAAATCCAATTCTCCTACATTACTGCAGCTTGATATG
Found at i:4996216 original size:29 final size:29
Alignment explanation
Indices: 4996174--4996253 Score: 105
Period size: 25 Copynumber: 2.9 Consensus size: 29
4996164 TGCAAATCCA
4996174 ATTCTCCTACATTAGTGTAGCTTGATATG
1 ATTCTCCTACATTAGTGTAGCTTGATATG
*
4996203 ATTCTCCTACATTAGTGTA----GATTTG
1 ATTCTCCTACATTAGTGTAGCTTGATATG
* *
4996228 ATTCTCCTACATTACTGCAGCTTGAT
1 ATTCTCCTACATTAGTGTAGCTTGAT
4996254 TTCTTAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
25 22 0.50
29 22 0.50
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (29 bp):
ATTCTCCTACATTAGTGTAGCTTGATATG
Found at i:4996235 original size:25 final size:25
Alignment explanation
Indices: 4996149--4996241 Score: 96
Period size: 25 Copynumber: 3.6 Consensus size: 25
4996139 TAGAAATCTA
* * ***
4996149 ATTCTCCTACATTAGTGCAAATCCA
1 ATTCTCCTACATTAGTGTAGATATG
4996174 ATTCTCCTACATTAGTGTAGCTTGATATG
1 ATTCTCCTACATTAGTGTA----GATATG
*
4996203 ATTCTCCTACATTAGTGTAGATTTG
1 ATTCTCCTACATTAGTGTAGATATG
4996228 ATTCTCCTACATTA
1 ATTCTCCTACATTA
4996242 CTGCAGCTTG
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
25 37 0.64
29 21 0.36
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.40
Consensus pattern (25 bp):
ATTCTCCTACATTAGTGTAGATATG
Found at i:5000430 original size:61 final size:59
Alignment explanation
Indices: 5000365--5000590 Score: 193
Period size: 61 Copynumber: 3.7 Consensus size: 59
5000355 ATAGAAACGT
* * * *
5000365 CTTGAATAATCCCATTCAATTTTTTTAAGGGACTATTTATGGCATTTTTTGCTGAAAAAGC
1 CTTGAATAATCCCATTCAAATTTTTTAAGGGATTATTCAAGGCATTTTTTGC-GAAAAA-C
* * * * *
5000426 CTTGAATATTCTCATTCAAATTTTTTAAGTGAATATTCAAGGCATTTTTTGCCAAAAAC
1 CTTGAATAATCCCATTCAAATTTTTTAAGGGATTATTCAAGGCATTTTTTGCGAAAAAC
* *** * * * *
5000485 ACATTGAATAAT-CCACTCATAAAAATTGATAGGGATTATTCAAGGCATCTTTGGCAAGAAACAC
1 -C-TTGAATAATCCCATTCA-AATTTTTTA-AGGGATTATTCAAGGCATTTTTTGC--GAAAAAC
* * *
5000549 CTTCAATAATCCCATTCAATTTTTTTAAGGGATTATTTAAGG
1 CTTGAATAATCCCATTCAAATTTTTTAAGGGATTATTCAAGG
5000591 TGTTTTTTAT
Statistics
Matches: 129, Mismatches: 29, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
59 1 0.01
60 11 0.09
61 72 0.56
62 33 0.26
63 7 0.05
64 5 0.04
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.37
Consensus pattern (59 bp):
CTTGAATAATCCCATTCAAATTTTTTAAGGGATTATTCAAGGCATTTTTTGCGAAAAAC
Found at i:5007933 original size:2 final size:2
Alignment explanation
Indices: 5007926--5007961 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
5007916 TCAAACACAA
5007926 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
5007962 ATCCCCAATC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:5013026 original size:14 final size:14
Alignment explanation
Indices: 5013009--5013044 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
5012999 AAATAACGTT
5013009 TTATAATT-ATTATA
1 TTATAATTAATTA-A
5013023 TTATAATTAATTAA
1 TTATAATTAATTAA
5013037 TTATAATT
1 TTATAATT
5013045 TAAAATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATAATTAATTAA
Found at i:5013085 original size:22 final size:21
Alignment explanation
Indices: 5013044--5013087 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
5013034 TAATTATAAT
5013044 TTAAAATTATAAAAAAATTTA
1 TTAAAATTATAAAAAAATTTA
* *
5013065 TTAAAATTTTATATAAAATTTA
1 TTAAAATTATA-AAAAAATTTA
5013087 T
1 T
5013088 GCTTATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAAAATTATAAAAAAATTTA
Found at i:5013387 original size:16 final size:17
Alignment explanation
Indices: 5013355--5013387 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
5013345 TGATTCAATC
*
5013355 AAATAATTATTTTTAAA
1 AAATAATTATTTATAAA
5013372 AAATAA-TATTTATAAA
1 AAATAATTATTTATAAA
5013388 TTTAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATAATTATTTATAAA
Found at i:5020716 original size:14 final size:14
Alignment explanation
Indices: 5020697--5020729 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5020687 TCACATCTTC
5020697 TAATT-ATTATATTA
1 TAATTAATTA-ATTA
5020711 TAATTAATTAATTA
1 TAATTAATTAATTA
5020725 TAATT
1 TAATT
5020730 TAAAATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TAATTAATTAATTA
Found at i:5021034 original size:29 final size:30
Alignment explanation
Indices: 5020965--5021035 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
5020955 TTTTCATTTG
5020965 AAATAAAAATTTATTTAAAAATAAATCAAA
1 AAATAAAAATTTATTTAAAAATAAATCAAA
* **
5020995 AAATAATAATTTATTTAAGTAT-AAT-AAA
1 AAATAAAAATTTATTTAAAAATAAATCAAA
5021023 AATATAAAAATTT
1 AA-ATAAAAATTT
5021036 GCTCAAGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 5 0.14
29 12 0.33
30 19 0.53
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (30 bp):
AAATAAAAATTTATTTAAAAATAAATCAAA
Found at i:5028886 original size:20 final size:20
Alignment explanation
Indices: 5028863--5028913 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
5028853 TTATTTTTAT
5028863 TTTTTATATATGTAAATTAA
1 TTTTTATATATGTAAATTAA
* *
5028883 TTTTTATATATTTGAATTAA
1 TTTTTATATATGTAAATTAA
*
5028903 TTTATATATAT
1 TTTTTATATAT
5028914 TTCACATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTTTATATATGTAAATTAA
Found at i:5031238 original size:93 final size:93
Alignment explanation
Indices: 5031137--5031321 Score: 300
Period size: 93 Copynumber: 2.0 Consensus size: 93
5031127 GAATCTATAG
* **
5031137 TTCATGCTTACCTTGGAATTGATGCAT-AGGGTCTGCAATTTGTAAATTGTTTGAACTTCCATTT
1 TTCATGCTTACCTTGGAATTGATGCATAAGGG-CTACAATTTGTAAATCATTTGAACTTCCATTT
*
5031201 TTTATTGTTGCTTTTGTAAAATTATTTAA
65 TATATTGTTGCTTTTGTAAAATTATTTAA
*
5031230 TTCATGCTTGCCTTGGAATTGATGCATAAGGGCTACAATTTGTAAATCATTTGAACTTCCATTTT
1 TTCATGCTTACCTTGGAATTGATGCATAAGGGCTACAATTTGTAAATCATTTGAACTTCCATTTT
*
5031295 ATATTGTTGCTTTTGTAAAATTGTTTA
66 ATATTGTTGCTTTTGTAAAATTATTTA
5031322 TGTTTCATAT
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
93 81 0.95
94 4 0.05
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.46
Consensus pattern (93 bp):
TTCATGCTTACCTTGGAATTGATGCATAAGGGCTACAATTTGTAAATCATTTGAACTTCCATTTT
ATATTGTTGCTTTTGTAAAATTATTTAA
Found at i:5032179 original size:14 final size:14
Alignment explanation
Indices: 5032153--5032194 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
5032143 GTTTCTTTTG
5032153 TTTTGTAAAAAATGA
1 TTTT-TAAAAAATGA
* *
5032168 TTTTTGAAAAATAA
1 TTTTTAAAAAATGA
5032182 TTTTTAAAAAATG
1 TTTTTAAAAAATG
5032195 TTTATATTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (14 bp):
TTTTTAAAAAATGA
Found at i:5032332 original size:20 final size:21
Alignment explanation
Indices: 5032298--5032337 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
5032288 CTTTCCAAAT
* *
5032298 AATATTAATATAA-TTATTAA
1 AATATTAAAAAAATTTATTAA
5032318 AATATTAAAAAAATTTATTA
1 AATATTAAAAAAATTTATTA
5032338 TTAAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AATATTAAAAAAATTTATTAA
Found at i:5032354 original size:10 final size:9
Alignment explanation
Indices: 5032334--5032418 Score: 50
Period size: 9 Copynumber: 9.6 Consensus size: 9
5032324 AAAAAAATTT
5032334 ATTATTAAA
1 ATTATTAAA
*
5032343 ATATATTGAA
1 AT-TATTAAA
*
5032353 ATTATT--T
1 ATTATTAAA
5032360 ATTATTAAA
1 ATTATTAAA
*
5032369 ATTATTAAT
1 ATTATTAAA
*
5032378 ATTA-AAAA
1 ATTATTAAA
* *
5032386 ATAATTATA
1 ATTATTAAA
* * *
5032395 TTTAATAAT
1 ATTATTAAA
5032404 ATTATTAAA
1 ATTATTAAA
5032413 TATTAT
1 -ATTAT
5032419 GTTAATATAA
Statistics
Matches: 54, Mismatches: 17, Indels: 9
0.68 0.21 0.11
Matches are distributed among these distances:
7 6 0.11
8 5 0.09
9 30 0.56
10 13 0.24
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (9 bp):
ATTATTAAA
Found at i:5032382 original size:15 final size:16
Alignment explanation
Indices: 5032345--5032384 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
5032335 TTATTAAAAT
*
5032345 ATATTGAAATTATTTA
1 ATATTAAAATTATTTA
*
5032361 TTATTAAAATTA-TTA
1 ATATTAAAATTATTTA
5032376 ATATTAAAA
1 ATATTAAAA
5032385 AATAATTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:5032488 original size:23 final size:23
Alignment explanation
Indices: 5032462--5032507 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
5032452 TATTATTTTT
5032462 ATATTATTTATGAATATATTATA
1 ATATTATTTATGAATATATTATA
*
5032485 ATATTATTTATTAATATATTATA
1 ATATTATTTATGAATATATTATA
5032508 TTAATAGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
ATATTATTTATGAATATATTATA
Done.