Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 254 of 284
Found at i:85422849 original size:28 final size:29
Alignment explanation
Indices: 85422806--85422875 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 29
85422796 ATTTGGGATA
85422806 AATATATATATAAATA-AATGAA-ATAATAAT
1 AATA-ATA-ATAAATACAAT-AACATAATAAT
85422836 AATAATAATAAATACCAATAACGATAATAAT
1 AATAATAATAAATA-CAATAAC-ATAATAAT
85422867 AATAATAAT
1 AATAATAAT
85422876 GTAAGGAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
28 7 0.19
29 5 0.14
30 7 0.19
31 17 0.47
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (29 bp):
AATAATAATAAATACAATAACATAATAAT
Found at i:85423006 original size:10 final size:10
Alignment explanation
Indices: 85422991--85423272 Score: 89
Period size: 9 Copynumber: 28.6 Consensus size: 10
85422981 AGAAGAAAAG
*
85422991 AAATAATAGT
1 AAATAATAAT
85423001 AAATAATAAT
1 AAATAATAAT
85423011 -AATAATAAT
1 AAATAATAAT
* *
85423020 -AATAGTAAA
1 AAATAATAAT
85423029 AAAGGTAATAAT
1 AAA--TAATAAT
*
85423041 -AATAATGAT
1 AAATAATAAT
85423050 -AATAATAAT
1 AAATAATAAT
** *
85423059 AGTTTATAA-
1 AAATAATAAT
*
85423068 AAACAATAAT
1 AAATAATAAT
*
85423078 AAATAATGAT
1 AAATAATAAT
*
85423088 -ATTAATACAT
1 AAATAATA-AT
85423098 AAATAGA-AAT
1 AAATA-ATAAT
*
85423108 AGAA-ATAGAAT
1 A-AATA-ATAAT
* *
85423119 ACATAAAAAT
1 AAATAATAAT
*
85423129 ATAATAATGAT
1 A-AATAATAAT
*
85423140 AGA-AAT-AT
1 AAATAATAAT
85423148 AAATAGATAGAT
1 AAATA-ATA-AT
*
85423160 AAAAAATAGAT
1 AAATAATA-AT
85423171 AAATAA-AAGT
1 AAATAATAA-T
** * *
85423181 ATTTGAGTAAGA
1 AAAT-AATAA-T
* *
85423193 AAATATCTGA-
1 AAATA-ATAAT
85423203 AAAT-ATAAT
1 AAATAATAAT
85423212 -AATAATAAT
1 AAATAATAAT
85423221 -AATAATAAT
1 AAATAATAAT
85423230 -AATAATAAT
1 AAATAATAAT
85423239 -AATAATAAT
1 AAATAATAAT
85423248 -AATAATAAT
1 AAATAATAAT
*
85423257 AAAATAACAA-
1 -AAATAATAAT
85423267 AAATAA
1 AAATAA
85423273 CAAAAGGGGA
Statistics
Matches: 208, Mismatches: 40, Indels: 49
0.70 0.13 0.16
Matches are distributed among these distances:
8 9 0.04
9 92 0.44
10 48 0.23
11 40 0.19
12 19 0.09
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (10 bp):
AAATAATAAT
Found at i:85423078 original size:3 final size:3
Alignment explanation
Indices: 85422992--85423059 Score: 68
Period size: 3 Copynumber: 22.3 Consensus size: 3
85422982 GAAGAAAAGA
* *
85422992 AAT AAT AGT AAAT AAT AAT AAT AAT AAT AAT AGT AA- AA- AAGGT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA--T AAT
*
85423038 AAT AAT AAT GAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
85423060 GTTTATAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
2 4 0.07
3 47 0.85
4 2 0.04
5 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:85423143 original size:38 final size:37
Alignment explanation
Indices: 85423100--85423172 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
85423090 TAATACATAA
85423100 ATAGAAATAGAAATAGAATACATAAAAATATA-ATAATG
1 ATAGAAATAGAAATAG-ATACATAAAAA-ATAGATAATG
* *
85423138 ATAGAAATATAAATAGATAGATAAAAAATAGATAA
1 ATAGAAATAGAAATAGATACATAAAAAATAGATAA
85423173 ATAAAAGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 3 0.09
37 14 0.44
38 15 0.47
ACGTcount: A:0.64, C:0.01, G:0.11, T:0.23
Consensus pattern (37 bp):
ATAGAAATAGAAATAGATACATAAAAAATAGATAATG
Found at i:85423168 original size:15 final size:15
Alignment explanation
Indices: 85423148--85423178 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
85423138 ATAGAAATAT
*
85423148 AAATAGATAGATAAA
1 AAATAGATAAATAAA
85423163 AAATAGATAAATAAA
1 AAATAGATAAATAAA
85423178 A
1 A
85423179 GTATTTGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (15 bp):
AAATAGATAAATAAA
Found at i:85423215 original size:3 final size:3
Alignment explanation
Indices: 85423207--85423263 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
85423197 ATCTGAAAAT
85423207 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
85423255 ATA A-A ATA A
1 ATA ATA ATA A
85423264 CAAAAATAAC
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:85425002 original size:23 final size:23
Alignment explanation
Indices: 85424972--85425027 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
85424962 TCTGCTCCAC
85424972 TGCAACTTCAGGGGGATAAGACT
1 TGCAACTTCAGGGGGATAAGACT
85424995 TGCAACTTCAGGGGGATAAGACT
1 TGCAACTTCAGGGGGATAAGACT
*
85425018 TGTAACTTCA
1 TGCAACTTCA
85425028 ACCTGCTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (23 bp):
TGCAACTTCAGGGGGATAAGACT
Found at i:85425057 original size:67 final size:68
Alignment explanation
Indices: 85424927--85425058 Score: 158
Period size: 67 Copynumber: 2.0 Consensus size: 68
85424917 TCTATTCCAC
* * * ** * * *
85424927 TGCAACTTCAGGGAGATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGGGATAAG
1 TGCAACTTCAGGGAGATAAGACTTGCTAACTTCAACCTGCTCAACTGCAACTTCAAGGAGATAAG
85424992 ACT
66 ACT
* * *
85424995 TGCAACTTCAGGGGGATAAGACTTG-TAACTTCAACCTGCTCAATTGCAACTTCAATGAGATAAG
1 TGCAACTTCAGGGAGATAAGACTTGCTAACTTCAACCTGCTCAACTGCAACTTCAAGGAGATAAG
85425059 GTTTGTGGAC
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
67 30 0.57
68 23 0.43
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (68 bp):
TGCAACTTCAGGGAGATAAGACTTGCTAACTTCAACCTGCTCAACTGCAACTTCAAGGAGATAAG
ACT
Found at i:85435335 original size:56 final size:56
Alignment explanation
Indices: 85435249--85435356 Score: 207
Period size: 56 Copynumber: 1.9 Consensus size: 56
85435239 ACGAGTGAAG
85435249 TCCCATAACTCTGACGTATACCTCGCTGTCAAGCTATCTCCCTTTTCCAATTACGT
1 TCCCATAACTCTGACGTATACCTCGCTGTCAAGCTATCTCCCTTTTCCAATTACGT
*
85435305 TCCCATAACTCTGACGTATACCTCGCTGTCAAGCTATCTCCTTTTTCCAATT
1 TCCCATAACTCTGACGTATACCTCGCTGTCAAGCTATCTCCCTTTTCCAATT
85435357 GTATTTTCTC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.21, C:0.33, G:0.10, T:0.35
Consensus pattern (56 bp):
TCCCATAACTCTGACGTATACCTCGCTGTCAAGCTATCTCCCTTTTCCAATTACGT
Found at i:85437074 original size:3 final size:3
Alignment explanation
Indices: 85437066--85437170 Score: 83
Period size: 3 Copynumber: 35.7 Consensus size: 3
85437056 AAATAAATGA
** * *
85437066 AAT AAT AAT AAT AAT AAT AAT AAT AAAT ACC AAT AAC GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
* * * *
85437112 AAT AAT AAT AAT -GT AAGG AAT AAT AAT AAT -AT AA- AAA AAT ATT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
85437155 AAA AAT AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AA
85437171 ATTAAAATGT
Statistics
Matches: 79, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
2 7 0.09
3 67 0.85
4 5 0.06
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:85437172 original size:12 final size:12
Alignment explanation
Indices: 85437042--85437189 Score: 50
Period size: 12 Copynumber: 11.3 Consensus size: 12
85437032 AATTTGGGAT
*
85437042 AAATATATATATA
1 AAATA-ATAAATA
85437055 TAAATAAATGAAATA
1 -AAAT-AAT-AAATA
85437070 ATAATAAT-AATA
1 A-AATAATAAATA
85437082 ATAATAATAAATA
1 A-AATAATAAATA
* *
85437095 CCAATAACGATAATA
1 -AAATAA-TA-AATA
85437110 ATAATAAT-AATA
1 A-AATAATAAATA
** **
85437122 ATGTAAGGAATA
1 AAATAATAAATA
*
85437134 ATAATAATATAAAA
1 A-AATAATA-AATA
*
85437148 AAATATTAAAAATA
1 AAATA--ATAAATA
85437162 AAATAATAAATTA
1 AAATAATAAA-TA
*
85437175 AAAT-GTAAATA
1 AAATAATAAATA
85437186 AAAT
1 AAAT
85437190 TAAAGGAGCA
Statistics
Matches: 103, Mismatches: 17, Indels: 31
0.68 0.11 0.21
Matches are distributed among these distances:
11 9 0.09
12 30 0.29
13 22 0.21
14 23 0.22
15 19 0.18
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (12 bp):
AAATAATAAATA
Found at i:85437271 original size:25 final size:25
Alignment explanation
Indices: 85437243--85437290 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
85437233 GAAGAAAAGA
*
85437243 AATAATAGTAAAAAATAATAATAAC
1 AATAACAGTAAAAAATAATAATAAC
* *
85437268 AATAACGGTACAAAATAATAATA
1 AATAACAGTAAAAAATAATAATA
85437291 GTAAAAAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (25 bp):
AATAACAGTAAAAAATAATAATAAC
Found at i:85437302 original size:25 final size:24
Alignment explanation
Indices: 85437253--85437313 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
85437243 AATAATAGTA
* *
85437253 AAAAATAATAATAACAATAACGGT
1 AAAAATAATAATAACAAAAAAGGT
**
85437277 ACAAAATAATAATAGTAAAAAAGGT
1 A-AAAATAATAATAACAAAAAAGGT
*
85437302 AATAATAATAAT
1 AAAAATAATAAT
85437314 GATAATAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.64, C:0.05, G:0.08, T:0.23
Consensus pattern (24 bp):
AAAAATAATAATAACAAAAAAGGT
Found at i:85437372 original size:26 final size:27
Alignment explanation
Indices: 85437342--85437405 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 27
85437332 TAAAAACAAT
*
85437342 AATAAATAATGATAT-TAATACA-TAA
1 AATAAATAATGAAATATAATACATTAA
85437367 ATATAAAT-A-GAAATATAATACATTAA
1 A-ATAAATAATGAAATATAATACATTAA
85437393 AATATAATAATGA
1 AATA-AATAATGA
85437406 CAGAAATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
24 4 0.12
25 12 0.38
26 13 0.41
27 1 0.03
28 2 0.06
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (27 bp):
AATAAATAATGAAATATAATACATTAA
Found at i:85437372 original size:38 final size:37
Alignment explanation
Indices: 85437302--85437373 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 37
85437292 TAAAAAAGGT
**
85437302 AATAATAATAATGATAATAATAATAGTTTATAAAAAC
1 AATAATAATAATGATAATAATAATAGAATATAAAAAC
*
85437339 AATAATAAATAATGATATTAATACATA-AATATAAA
1 AATAAT-AATAATGATAATAATA-ATAGAATATAAA
85437374 TAGAAATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 6 0.20
38 21 0.70
39 3 0.10
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (37 bp):
AATAATAATAATGATAATAATAATAGAATATAAAAAC
Found at i:85437435 original size:15 final size:15
Alignment explanation
Indices: 85437415--85437445 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
85437405 ACAGAAATAT
*
85437415 AAATAGATAGATAAA
1 AAATAGATAAATAAA
85437430 AAATAGATAAATAAA
1 AAATAGATAAATAAA
85437445 A
1 A
85437446 GTATTTGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (15 bp):
AAATAGATAAATAAA
Found at i:85437482 original size:3 final size:3
Alignment explanation
Indices: 85437474--85437498 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
85437464 ATCTAAAAAT
85437474 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
85437499 ACATAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:85440547 original size:27 final size:28
Alignment explanation
Indices: 85440508--85440570 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
85440498 CTTTAAAAAT
* *
85440508 TAATTAAAATGA-TAACATTTATAA-AAA
1 TAATAAAAATGATTAA-ATTCATAATAAA
85440535 T-ATAAAAATTGATTAAATTCATAATAAA
1 TAATAAAAA-TGATTAAATTCATAATAAA
85440563 TAATAAAA
1 TAATAAAA
85440571 TTATAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 6 0.20
27 11 0.37
28 7 0.23
29 6 0.20
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (28 bp):
TAATAAAAATGATTAAATTCATAATAAA
Found at i:85440558 original size:19 final size:18
Alignment explanation
Indices: 85440501--85440590 Score: 71
Period size: 18 Copynumber: 5.1 Consensus size: 18
85440491 AAAAAATCTT
*
85440501 TAAAAATTAATTAAAATGA
1 TAAAAATTAA-TAAAATTA
* * *
85440520 T-AACATTTATAAAAATA
1 TAAAAATTAATAAAATTA
* *
85440537 TAAAAATTGATTAAATTCA
1 TAAAAATTAATAAAATT-A
85440556 TAATAAA-TAATAAAATTA
1 TAA-AAATTAATAAAATTA
85440574 TAAAAA-TAAT-AAATTA
1 TAAAAATTAATAAAATTA
85440590 T
1 T
85440591 GTTTTTTTTC
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
16 7 0.12
17 14 0.24
18 21 0.36
19 13 0.22
20 3 0.05
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
TAAAAATTAATAAAATTA
Found at i:85447275 original size:19 final size:19
Alignment explanation
Indices: 85447251--85447325 Score: 64
Period size: 19 Copynumber: 3.9 Consensus size: 19
85447241 TTCATCCTAG
85447251 AATTATAAAAACATAAAAA
1 AATTATAAAAACATAAAAA
*
85447270 AATTATAAAAATCAT-TAAA
1 AATTATAAAAA-CATAAAAA
* * *
85447289 AATTAATTAAAA-TTATAAA
1 AATT-ATAAAAACATAAAAA
* *
85447308 ATTTATAAAAATATAAAA
1 AATTATAAAAACATAAAA
85447326 GTTAATTAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
18 7 0.16
19 29 0.64
20 9 0.20
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTATAAAAACATAAAAA
Found at i:85447279 original size:9 final size:9
Alignment explanation
Indices: 85447251--85447370 Score: 75
Period size: 9 Copynumber: 13.0 Consensus size: 9
85447241 TTCATCCTAG
85447251 AATTATAAA
1 AATTATAAA
* *
85447260 AACATAAAAA
1 AA-TTATAAA
85447270 AATTATAAA
1 AATTATAAA
*
85447279 AATCATTAAA
1 AATTA-TAAA
*
85447289 AATTAATTAA
1 AATT-ATAAA
85447299 AATTATAAA
1 AATTATAAA
*
85447308 ATTTATAAA
1 AATTATAAA
85447317 AA-TATAAA
1 AATTATAAA
* **
85447325 AGTTA-ATT
1 AATTATAAA
85447333 AATGTCATAATA
1 AAT-T-ATAA-A
*
85447345 AATAAT-AA
1 AATTATAAA
85447353 AATTATAAA
1 AATTATAAA
*
85447362 AATAATAAA
1 AATTATAAA
85447371 TTATATTTTT
Statistics
Matches: 83, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
8 16 0.19
9 38 0.46
10 24 0.29
11 2 0.02
12 3 0.04
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (9 bp):
AATTATAAA
Found at i:85447316 original size:17 final size:18
Alignment explanation
Indices: 85447283--85447375 Score: 70
Period size: 17 Copynumber: 5.3 Consensus size: 18
85447273 TATAAAAATC
85447283 ATTA-AAAATTAATTAAA
1 ATTATAAAATTAATTAAA
*
85447300 ATTATAAAATTTA-TAAA
1 ATTATAAAATTAATTAAA
* *
85447317 AATATAAAAGTTAATTAAT
1 ATTATAAAA-TTAATTAAA
* * *
85447336 GTCATAATAAATAA-TAAA
1 ATTATAA-AATTAATTAAA
*
85447354 ATTATAAAAATAA-T-AA
1 ATTATAAAATTAATTAAA
85447370 ATTATA
1 ATTATA
85447376 TTTTTTTCTA
Statistics
Matches: 61, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
16 8 0.13
17 23 0.38
18 18 0.30
19 10 0.16
20 2 0.03
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.35
Consensus pattern (18 bp):
ATTATAAAATTAATTAAA
Found at i:85462873 original size:13 final size:13
Alignment explanation
Indices: 85462864--85462903 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
85462854 AAGAATTTTC
85462864 TTGGAAAATTAAT
1 TTGGAAAATTAAT
85462877 TTGGAAAATTAAT
1 TTGGAAAATTAAT
*
85462890 GTTGAAAAATTAAT
1 -TTGGAAAATTAAT
85462904 GTGAAGTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGGAAAATTAAT
Found at i:85462900 original size:14 final size:14
Alignment explanation
Indices: 85462868--85462905 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
85462858 ATTTTCTTGG
*
85462868 AAAATTAAT-TTGG
1 AAAATTAATGTTGA
85462881 AAAATTAATGTTGA
1 AAAATTAATGTTGA
85462895 AAAATTAATGT
1 AAAATTAATGT
85462906 GAAGTTTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (14 bp):
AAAATTAATGTTGA
Found at i:85462908 original size:13 final size:13
Alignment explanation
Indices: 85462868--85462908 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
85462858 ATTTTCTTGG
* *
85462868 AAAATTAATTTGG
1 AAAATTAATGTGA
85462881 AAAATTAATGTTGA
1 AAAATTAATG-TGA
85462895 AAAATTAATGTGA
1 AAAATTAATGTGA
85462908 A
1 A
85462909 GTTTGATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.34
Consensus pattern (13 bp):
AAAATTAATGTGA
Found at i:85465918 original size:12 final size:12
Alignment explanation
Indices: 85465901--85465927 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
85465891 ACTAGATTGA
85465901 TTAATATAATAT
1 TTAATATAATAT
85465913 TTAATATAATAT
1 TTAATATAATAT
85465925 TTA
1 TTA
85465928 TCTTGATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTAATATAATAT
Found at i:85471169 original size:14 final size:14
Alignment explanation
Indices: 85471140--85471198 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
85471130 TTGAGATTCT
*
85471140 AAAAAAATTC-T-A
1 AAAAAAATTCGTGG
85471152 AAAAAAATTCGTGG
1 AAAAAAATTCGTGG
*
85471166 AAAAAAATTCATGAG
1 AAAAAAATTCGTG-G
* *
85471181 AAAACAATTCGAGG
1 AAAAAAATTCGTGG
85471195 AAAA
1 AAAA
85471199 TTCTGTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
12 10 0.26
13 1 0.03
14 17 0.44
15 11 0.28
ACGTcount: A:0.59, C:0.08, G:0.14, T:0.19
Consensus pattern (14 bp):
AAAAAAATTCGTGG
Found at i:85471189 original size:29 final size:26
Alignment explanation
Indices: 85471140--85471198 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 26
85471130 TTGAGATTCT
*
85471140 AAAAAAATTCTAAAAAAAATTCGTGG
1 AAAAAAATTCTAAAAAAAATTCGAGG
*
85471166 AAAAAAATTCATGAGAAAACAATTCGAGG
1 AAAAAAATTC-T-A-AAAAAAATTCGAGG
85471195 AAAA
1 AAAA
85471199 TTCTGTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 10 0.36
27 1 0.04
28 1 0.04
29 16 0.57
ACGTcount: A:0.59, C:0.08, G:0.14, T:0.19
Consensus pattern (26 bp):
AAAAAAATTCTAAAAAAAATTCGAGG
Found at i:85478783 original size:21 final size:21
Alignment explanation
Indices: 85478759--85478828 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
85478749 AAATCTGAAC
85478759 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
* * **
85478780 TCA-TGATATATGTGACATCTGAAC
1 TCATTGA-GT-TGTG--GTCTGAGT
*
85478804 TCATTGAGTTGTGGTATGAGT
1 TCATTGAGTTGTGGTCTGAGT
85478825 TCAT
1 TCAT
85478829 GATGTATATG
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
20 3 0.09
21 12 0.34
22 4 0.11
23 4 0.11
24 9 0.26
25 3 0.09
ACGTcount: A:0.23, C:0.11, G:0.26, T:0.40
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTGAGT
Found at i:85478815 original size:45 final size:45
Alignment explanation
Indices: 85478745--85478841 Score: 158
Period size: 45 Copynumber: 2.2 Consensus size: 45
85478735 CACTAGGAAC
* *
85478745 TATGAAATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATA
1 TATGACATCTGAACTCATTGAGTTGTGGTATGAGTTCATGATATA
* *
85478790 TGTGACATCTGAACTCATTGAGTTGTGGTATGAGTTCATGATGTA
1 TATGACATCTGAACTCATTGAGTTGTGGTATGAGTTCATGATATA
85478835 TATGACA
1 TATGACA
85478842 CATGTTTTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (45 bp):
TATGACATCTGAACTCATTGAGTTGTGGTATGAGTTCATGATATA
Found at i:85482908 original size:42 final size:42
Alignment explanation
Indices: 85482792--85482939 Score: 199
Period size: 42 Copynumber: 3.5 Consensus size: 42
85482782 TACCAAACCA
* *
85482792 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCG
* * * *
85482834 ATTCCAATAGCCCAGCTATGGTCTTACGCGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* *
85482877 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTTATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
85482919 ATGCCATATCCCAGATATGGT
1 ATGCCATATCCCAGATATGGT
85482940 TTTGCACATA
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 59 0.64
43 33 0.36
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:85511947 original size:29 final size:29
Alignment explanation
Indices: 85511908--85511973 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
85511898 CACAGCCTGG
*
85511908 ACACATGGGCGTGTACTTGGCCGTGTGAC
1 ACACACGGGCGTGTACTTGGCCGTGTGAC
*
85511937 ACACACGGGCGTGTCCTTGGCCGTGTGAC
1 ACACACGGGCGTGTACTTGGCCGTGTGAC
85511966 ACACACGG
1 ACACACGG
85511974 CCTGGACACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.18, C:0.29, G:0.33, T:0.20
Consensus pattern (29 bp):
ACACACGGGCGTGTACTTGGCCGTGTGAC
Found at i:85512981 original size:11 final size:11
Alignment explanation
Indices: 85512965--85512991 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
85512955 ATTATTATTA
85512965 TTATTATTTCT
1 TTATTATTTCT
85512976 TTATTATTTCT
1 TTATTATTTCT
85512987 TTATT
1 TTATT
85512992 TTATTAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTATTTCT
Found at i:85514605 original size:5 final size:5
Alignment explanation
Indices: 85514595--85514633 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
85514585 TTGAGTCCAC
*
85514595 TTATT TTATT TTATT TTAATT TTCTT TTATTT TTATT TT
1 TTATT TTATT TTATT TT-ATT TTATT TTA-TT TTATT TT
85514634 TAGTTTTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 20 0.67
6 10 0.33
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:85514622 original size:16 final size:16
Alignment explanation
Indices: 85514597--85514633 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
85514587 GAGTCCACTT
85514597 ATTTTATTTTATTTTA
1 ATTTTATTTTATTTTA
* *
85514613 ATTTTCTTTTATTTTT
1 ATTTTATTTTATTTTA
85514629 ATTTT
1 ATTTT
85514634 TAGTTTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (16 bp):
ATTTTATTTTATTTTA
Found at i:85514645 original size:11 final size:10
Alignment explanation
Indices: 85514595--85514633 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
85514585 TTGAGTCCAC
85514595 TTATTTTATT
1 TTATTTTATT
85514605 TTATTTTAATT
1 TTATTTT-ATT
*
85514616 TTCTTTTATTT
1 TTATTTTA-TT
85514627 TTATTTT
1 TTATTTT
85514634 TAGTTTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (10 bp):
TTATTTTATT
Found at i:85545380 original size:30 final size:30
Alignment explanation
Indices: 85545344--85545401 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
85545334 GACACAAAGC
*
85545344 CGTGTAGTGTGACCATGTGTGGCACACGGT
1 CGTGTAGTGTGACCATGTATGGCACACGGT
85545374 CGTGTAGTGTGACCATGTATGGCACACG
1 CGTGTAGTGTGACCATGTATGGCACACG
85545402 ACCATGTGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.19, C:0.21, G:0.34, T:0.26
Consensus pattern (30 bp):
CGTGTAGTGTGACCATGTATGGCACACGGT
Found at i:85546637 original size:24 final size:25
Alignment explanation
Indices: 85546605--85546652 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
85546595 ATCACGTACC
85546605 CTTTAAAG-TTTATTTACCCATTGG
1 CTTTAAAGTTTTATTTACCCATTGG
85546629 CTTTAAAGTTTTATTTACCCATTG
1 CTTTAAAGTTTTATTTACCCATTG
85546653 AACCAAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.48
Consensus pattern (25 bp):
CTTTAAAGTTTTATTTACCCATTGG
Found at i:85547085 original size:20 final size:19
Alignment explanation
Indices: 85547038--85547088 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
85547028 CAGATTCACC
85547038 AAAGTGCAAACAGAGGCAT
1 AAAGTGCAAACAGAGGCAT
* *
85547057 AAATATGCAATCAGAGGCAT
1 AAA-GTGCAAACAGAGGCAT
*
85547077 CGAAGTGCAAAC
1 -AAAGTGCAAAC
85547089 CTGTACAAGC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 3 0.12
20 20 0.80
21 2 0.08
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.14
Consensus pattern (19 bp):
AAAGTGCAAACAGAGGCAT
Found at i:85548529 original size:15 final size:17
Alignment explanation
Indices: 85548498--85548530 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
85548488 AACTATTCAT
85548498 TCAAATAACATAAATTA
1 TCAAATAACATAAATTA
85548515 TCAAATAA-A-AAATTA
1 TCAAATAACATAAATTA
85548530 T
1 T
85548531 TATAACATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (17 bp):
TCAAATAACATAAATTA
Found at i:85551122 original size:31 final size:31
Alignment explanation
Indices: 85551058--85551133 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
85551048 TTTTGGCCCT
* *
85551058 AGGATTCGCGTGTTGACCCGACCCGCCAGGG
1 AGGATCCGCGTGTTGACCCGACCCGCCAAGG
* ** *
85551089 AGGATCCGCATGTTGACCCGACCTTCTAAGG
1 AGGATCCGCGTGTTGACCCGACCCGCCAAGG
85551120 AGGATCCGCGTGTT
1 AGGATCCGCGTGTT
85551134 TTTTATAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.18, C:0.29, G:0.32, T:0.21
Consensus pattern (31 bp):
AGGATCCGCGTGTTGACCCGACCCGCCAAGG
Found at i:85551448 original size:3 final size:3
Alignment explanation
Indices: 85551440--85551830 Score: 127
Period size: 3 Copynumber: 132.0 Consensus size: 3
85551430 TAGTTTAATG
* * * * * * * * *
85551440 TTA TTA TTA TTA TTA TTG TTG TTG TTG TTG TTG TTG TTG TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** *
85551488 TTA TTA TCC TTA TTAA TGTA TAA TTA TTA TT- TTCGA TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA TT--A TTA TTA TTA TTA
* * * *
85551536 ATA -TA TTA TTA TTA TCCA -TA TTA ATA -TA TTA TTA TTA TTT TGTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * * * * *
85551580 CT- TTA TTA TTA TTG TTG TT- TTA TTA CTG TTA TTA TTA TCA -TA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
85551625 TTA -AA CTAA TTAA TTT TTG TGCTA TTA TTA TTA -TA TTA -TA TT- TTT
1 TTA TTA -TTA TT-A TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
85551670 TTA TT- TT- TTA TT- TTT TGTG TTT TTA CTTA CTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA -TTA TTA TTA TTA TTA TTA
* ** * *
85551714 TTA TTA TTG CCA CTA TTA TTA TT- TTT TTA TTGA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
* * * * * *
85551758 TTAA TTA AT- TTA GTA TT- TTG TTG TTG TTG TTA TTA TTA TTA TTA
1 TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
85551802 TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
85551831 CAAATTGTGC
Statistics
Matches: 307, Mismatches: 49, Indels: 64
0.73 0.12 0.15
Matches are distributed among these distances:
2 33 0.11
3 247 0.80
4 22 0.07
5 5 0.02
ACGTcount: A:0.26, C:0.04, G:0.07, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:85551556 original size:17 final size:19
Alignment explanation
Indices: 85551523--85551570 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
85551513 ATTATTTTCG
*
85551523 ATTATTATTATTAATA-T-
1 ATTATTATTATCAATATTA
*
85551540 ATTATTATTATCCATATTA
1 ATTATTATTATCAATATTA
85551559 ATATATTATTAT
1 AT-TATTATTAT
85551571 TATTTTGTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 14 0.54
18 1 0.04
19 2 0.08
20 9 0.35
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTATTATTATCAATATTA
Found at i:85552652 original size:76 final size:76
Alignment explanation
Indices: 85552520--85552670 Score: 275
Period size: 76 Copynumber: 2.0 Consensus size: 76
85552510 TCAAAATTTC
* *
85552520 AACTTTTGACATTAAGACACTAATTAATGAACTAGGTACCAATTTTAGGCGTTACTAGGGTGCTA
1 AACTTTCGACATTAAGACACTAATTAATGAACTAGGTACCAATTTTAGGCGGTACTAGGGTGCTA
85552585 ATCCTTCCTCG
66 ATCCTTCCTCG
*
85552596 AACTTTCGACATTAAGACACTAATTAATGAACTAGGTACCAATTTTGGGCGGTACTAGGGTGCTA
1 AACTTTCGACATTAAGACACTAATTAATGAACTAGGTACCAATTTTAGGCGGTACTAGGGTGCTA
85552661 ATCCTTCCTC
66 ATCCTTCCTC
85552671 ATATGTAACT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (76 bp):
AACTTTCGACATTAAGACACTAATTAATGAACTAGGTACCAATTTTAGGCGGTACTAGGGTGCTA
ATCCTTCCTCG
Found at i:85558153 original size:45 final size:46
Alignment explanation
Indices: 85558080--85558198 Score: 134
Period size: 45 Copynumber: 2.6 Consensus size: 46
85558070 TGACAGATCA
* * * * **
85558080 ATTGAAGAAGCTACAAGTTCTATTCCCTTGATTTGCAGCGGGACGG
1 ATTGAAGAAGATACAAATCCTATACCCTTGAACTGCAGCGGGACGG
* *
85558126 ATTGAA-AAGATACAAATCCTATACCCTTGAACTGTAGCGGGATGG
1 ATTGAAGAAGATACAAATCCTATACCCTTGAACTGCAGCGGGACGG
*
85558171 ATTGAAGATGA-AGCAAATCCTATACCCT
1 ATTGAAGAAGATA-CAAATCCTATACCCT
85558199 GAGTTGTATA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
45 38 0.61
46 24 0.39
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (46 bp):
ATTGAAGAAGATACAAATCCTATACCCTTGAACTGCAGCGGGACGG
Found at i:85558598 original size:44 final size:44
Alignment explanation
Indices: 85558549--85559245 Score: 379
Period size: 44 Copynumber: 16.1 Consensus size: 44
85558539 TCACAGATCC
*
85558549 TATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATGGCAAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
* ** * * *
85558593 TATCTCCCTAAGTAGTAGTGGAGCAGAT-TTA-A-GCCACCATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCA-AATCT
* * * * * * * *
85558635 TATCTCCTTAAGCAGTAGTGGAGTAGGTTGAAAATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
* * * * * *
85558679 TGTCTCCCTAAGAAGTAGTAGAACAGATCGAAGATGGTAAATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
** * * *
85558723 TATCTCCCTAAGCAGTAGT-----A-AT-TTA-A-GCCACCATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCA-AATCT
* * * * * *
85558759 TATCTCCATAAGCAGTAGTGGAGTAGGCTC-AAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCA-GATCGAAGATGGCAAATCT
* * * * ** *
85558803 TGTCTTCATAAGCAGTATTGGAGC-GTATCGAAGATAACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAG-ATCGAAGATGGCAAATCT
* * * * *
85558847 TCTCTCCCTAAGCAGTGGTAGAGCAGATCAAAGATGGAAAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
* * ** * * *
85558891 TGTCTCCCTAAGAAGTAGTGGAGCAGAT-TTA-A-GCCACTATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCA-AATCT
* * * * * * *
85558933 TATCTCCCTAAGTAGTAGTGGAGGAG-GCTGAAGATTGTAGACCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGATGGCAAATCT
* * * ** * *
85558977 TGTCTCCTTAAGCAGTACTGGAATAGATTGAAAATGGCAAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
* * * * * * *
85559021 TGTCTCCCTAAGCAGTAGTGGAGTAG-GCTGAAGATTGTAGATGT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGATGGCAAATCT
*
85559065 TGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
* *
85559109 TGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGAAAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
* * * * * * ** *
85559153 TATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAGATCACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
* * * * * * *
85559197 TATCTTCTTAAGCAGTAGTGGAGCGGATTGAATACGGCGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
85559241 TATCT
1 TATCT
85559246 TCCCGAGGTA
Statistics
Matches: 486, Mismatches: 141, Indels: 52
0.72 0.21 0.08
Matches are distributed among these distances:
35 2 0.00
36 23 0.05
37 1 0.00
38 2 0.00
39 1 0.00
41 6 0.01
42 56 0.12
43 8 0.02
44 382 0.79
45 5 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
Found at i:85558690 original size:86 final size:86
Alignment explanation
Indices: 85558545--85558706 Score: 207
Period size: 86 Copynumber: 1.9 Consensus size: 86
85558535 AAATTCACAG
* *
85558545 ATCCTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCCTAAGTAGTA
1 ATCCTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAAATGGCAAATCTTATCTCCCTAAGAAGTA
* *
85558610 GTGGAGCAGATTTAAGCCACC
66 GTAGAACAGATTTAAGCCACC
* * * * * * * * *
85558631 ATCCTATCTCCTTAAGCAGTAGTGGAGTAGGTTGAAAATTGTAGATCTTGTCTCCCTAAGAAGTA
1 ATCCTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAAATGGCAAATCTTATCTCCCTAAGAAGTA
85558696 GTAGAACAGAT
66 GTAGAACAGAT
85558707 CGAAGATGGT
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
86 63 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (86 bp):
ATCCTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAAATGGCAAATCTTATCTCCCTAAGAAGTA
GTAGAACAGATTTAAGCCACC
Found at i:85558833 original size:124 final size:126
Alignment explanation
Indices: 85558551--85558862 Score: 378
Period size: 124 Copynumber: 2.5 Consensus size: 126
85558541 ACAGATCCTA
* * * *
85558551 TCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCCTAAGTAGTAGTGGAG
1 TCTCCATAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCCTATCTCCCTAAGCAGTAGT---G
* * *
85558616 CAGATTTAAGCCACCATCCTATCTCCTTAAGCAGTAGTGGAGTAGGTTGAAAATTGTAGATCTTG
63 -AGATTTAAGCCACCATCCTATCTCCATAAGCAGTAGTGGAGTAGGCTCAAAATTGTAGATCTTG
* * * * *
85558681 TCTCCCTAAGAAGTAGTAGAACAGATCGAAGATGGTAAATCCTATCTCCCTAAGCAGTAGT-A-A
1 TCTCCATAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCCTATCTCCCTAAGCAGTAGTGAGA
*
85558744 TTTAAGCCACCATCCTATCTCCATAAGCAGTAGTGGAGTAGGCTCAAGATTGTAGATCTTG
66 TTTAAGCCACCATCCTATCTCCATAAGCAGTAGTGGAGTAGGCTCAAAATTGTAGATCTTG
* * ** * * *
85558805 TCTTCATAAGCAGTATTGGAGC-GTATCGAAGATAACAGATCTTCTCTCCCTAAGCAGT
1 TCTCCATAAGCAGTAGTGGAGCAG-ATCGAAGATGGCAAATCCTATCTCCCTAAGCAGT
85558863 GGTAGAGCAG
Statistics
Matches: 158, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
123 1 0.01
124 102 0.65
125 1 0.01
130 54 0.34
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (126 bp):
TCTCCATAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCCTATCTCCCTAAGCAGTAGTGAGA
TTTAAGCCACCATCCTATCTCCATAAGCAGTAGTGGAGTAGGCTCAAAATTGTAGATCTTG
Found at i:85559029 original size:174 final size:174
Alignment explanation
Indices: 85558637--85559092 Score: 514
Period size: 174 Copynumber: 2.7 Consensus size: 174
85558627 CACCATCCTA
* * * * * * *
85558637 TCTCCTTAAGCAGTAGTGGAGTAGGTTGAAAATTGTAGATCTTGTCTCCCTAAGAAGTAGTAGAA
1 TCTCCTTAAGCAGTACTGGAATAGATTGAAAATAGCAGATCTTGTCTCCCTAAGCAGTAGTAGAG
* *
85558702 CAGATCGAAGATGGTAAATCCTATCTCCCTAAGCAGTAGT-----A-ATTTAAGCCACCATCCTA
66 CAGATCGAAGATGGTAAATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTA
* *
85558761 TCTCCATAAGCAGTAGTGGAGTAGGCTCAAGATTGTAGATCTTG
131 TCTCCATAAGCAGTAGTGGAGGAGGCTCAAGATTGTAGACCTTG
* * * ** * * * * *
85558805 TCTTCATAAGCAGTATTGG-AGCGTATCGAAGATAACAGATCTTCTCTCCCTAAGCAGTGGTAGA
1 TCTCCTTAAGCAGTACTGGAATAG-ATTGAAAATAGCAGATCTTGTCTCCCTAAGCAGTAGTAGA
* * * *
85558869 GCAGATCAAAGATGGAAAATCTTGTCTCCCTAAGAAGTAGTGGAGCAGATTTAAGCCACTATCCT
65 GCAGATCGAAGATGGTAAATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCT
* * *
85558934 ATCTCCCTAAGTAGTAGTGGAGGAGGCTGAAGATTGTAGACCTTG
130 ATCTCCATAAGCAGTAGTGGAGGAGGCTCAAGATTGTAGACCTTG
* * *
85558979 TCTCCTTAAGCAGTACTGGAATAGATTGAAAATGGCAAATCTTGTCTCCCTAAGCAGTAGTGGAG
1 TCTCCTTAAGCAGTACTGGAATAGATTGAAAATAGCAGATCTTGTCTCCCTAAGCAGTAGTAGAG
* * * * *
85559044 TAG-GCTGAAGATTGTAGATGTTGTCTCCCTAAGCAGTAGTGGAGCAGAT
66 CAGATC-GAAGATGGTAAATCTTGTCTCCCTAAGCAGTAGTGGAGCAGAT
85559093 CGAAGATGGC
Statistics
Matches: 231, Mismatches: 48, Indels: 12
0.79 0.16 0.04
Matches are distributed among these distances:
167 1 0.00
168 82 0.35
173 2 0.01
174 144 0.62
175 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (174 bp):
TCTCCTTAAGCAGTACTGGAATAGATTGAAAATAGCAGATCTTGTCTCCCTAAGCAGTAGTAGAG
CAGATCGAAGATGGTAAATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTA
TCTCCATAAGCAGTAGTGGAGGAGGCTCAAGATTGTAGACCTTG
Found at i:85559304 original size:132 final size:132
Alignment explanation
Indices: 85559168--85559486 Score: 361
Period size: 132 Copynumber: 2.4 Consensus size: 132
85559158 CTCTGAGCAG
** * * * * * *
85559168 CAGTGGAGTAGGTTGAAGATCACAGATCTTATCT-TCTTAAGCAGTAGTGGAGCGGATTGAATAC
1 CAGTGGAACAGGTTAAAGATCACAGATCTTATCTCCCTT-AGCAGTAGTGGAACAGATCGAAGAC
* *
85559232 GGCGAATCTTATCTTCCCGAGGTAATAGGGAAGCAGATTTAAGCTACTAGCCTTGTCTCCCTAAA
65 GGCAAATCTTATCTTCCCGAGGTAATAGGGAAGCAGATTTAAGCCACTAGCCTTGTCTCCCTAAA
85559297 TAA
130 TAA
*** *
85559300 CAGTGGAACAGGTTAAAGATTGTAGATCTTATCTCCCTTAGGAGTAGTGGAACAGATCGAAGACG
1 CAGTGGAACAGGTTAAAGATCACAGATCTTATCTCCCTTAGCAGTAGTGGAACAGATCGAAGACG
* * * * *
85559365 GTAAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTGTCTCTCTGAGT
66 GCAAATCTTATCTTCCCGAGGTAATAGGGAAGCAGATTTAAGCCACTAGCCTTGTCTCCCTAAAT
*
85559430 AG
131 AA
* * *** * * * *
85559432 CAGTGGAACAGGCTGAAGATTTTAGACCTTGTCTCCCTGAGCAGCAGTGGAACAG
1 CAGTGGAACAGGTTAAAGATCACAGATCTTATCTCCCTTAGCAGTAGTGGAACAG
85559487 GCTGAAGATT
Statistics
Matches: 158, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
132 155 0.98
133 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (132 bp):
CAGTGGAACAGGTTAAAGATCACAGATCTTATCTCCCTTAGCAGTAGTGGAACAGATCGAAGACG
GCAAATCTTATCTTCCCGAGGTAATAGGGAAGCAGATTTAAGCCACTAGCCTTGTCTCCCTAAAT
AA
Found at i:85559350 original size:44 final size:44
Alignment explanation
Indices: 85559301--85559526 Score: 170
Period size: 44 Copynumber: 5.1 Consensus size: 44
85559291 CCTAAATAAC
* * *
85559301 AGTGGAACAGGTTAAAGATTGTAGATCTTATCTCCCTTAGGAGT
1 AGTGGAACAGGTTGAAGATTGTAGATCTTATCTCCCTGAGCAGT
* * ** * *
85559345 AGTGGAACAGATCGAAGACGGTAAATCTTATCTTCCC-GAGGTAGT
1 AGTGGAACAGGTTGAAGATTGTAGATCTTATC-TCCCTGA-GCAGT
* * **** * * * * *
85559390 AG-GGAAGCAGATTTAAGCCACTAG-CCTTGTCTCTCTGAGTAGC
1 AGTGGAA-CAGGTTGAAGATTGTAGATCTTATCTCCCTGAGCAGT
* * * * *
85559433 AGTGGAACAGGCTGAAGATTTTAGACCTTGTCTCCCTGAGCAGC
1 AGTGGAACAGGTTGAAGATTGTAGATCTTATCTCCCTGAGCAGT
*
85559477 AGTGGAACAGGCTGAAGATTGTAGATCTTATCTCCCTGAGCAGT
1 AGTGGAACAGGTTGAAGATTGTAGATCTTATCTCCCTGAGCAGT
85559521 AGTGGA
1 AGTGGA
85559527 GTAGATTAAA
Statistics
Matches: 145, Mismatches: 31, Indels: 12
0.77 0.16 0.06
Matches are distributed among these distances:
43 19 0.13
44 105 0.72
45 21 0.14
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (44 bp):
AGTGGAACAGGTTGAAGATTGTAGATCTTATCTCCCTGAGCAGT
Found at i:85559509 original size:132 final size:132
Alignment explanation
Indices: 85559236--85559486 Score: 376
Period size: 132 Copynumber: 1.9 Consensus size: 132
85559226 GAATACGGCG
*
85559236 AATCTTATCTTCCCGAGGTAATAGGGAAGCAGATTTAAGCTACTAGCCTTGTCTCCCTAAATAAC
1 AATCTTATCTTCCCGAGGTAATAGGGAAGCAGATTTAAGCCACTAGCCTTGTCTCCCTAAATAAC
* * * * *
85559301 AGTGGAACAGGTTAAAGATTGTAGATCTTATCTCCCTTAGGAGTAGTGGAACAGATCGAAGACGG
66 AGTGGAACAGGCTAAAGATTGTAGACCTTATCTCCCTGAGCAGCAGTGGAACAGATCGAAGACGG
85559366 TA
131 TA
* * * * *
85559368 AATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTGTCTCTCTGAGTAGC
1 AATCTTATCTTCCCGAGGTAATAGGGAAGCAGATTTAAGCCACTAGCCTTGTCTCCCTAAATAAC
* * *
85559433 AGTGGAACAGGCTGAAGATTTTAGACCTTGTCTCCCTGAGCAGCAGTGGAACAG
66 AGTGGAACAGGCTAAAGATTGTAGACCTTATCTCCCTGAGCAGCAGTGGAACAG
85559487 GCTGAAGATT
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
132 105 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (132 bp):
AATCTTATCTTCCCGAGGTAATAGGGAAGCAGATTTAAGCCACTAGCCTTGTCTCCCTAAATAAC
AGTGGAACAGGCTAAAGATTGTAGACCTTATCTCCCTGAGCAGCAGTGGAACAGATCGAAGACGG
TA
Found at i:85559685 original size:44 final size:45
Alignment explanation
Indices: 85559503--85559758 Score: 218
Period size: 44 Copynumber: 5.8 Consensus size: 45
85559493 GATTGTAGAT
* * * * * * *
85559503 CTTATCTCCCTG-AGCAGTAGTGGAGTAGATTAAAAACAGCAAAT
1 CTTATCTCCCTGAAGTAGCAGCGGAGCAGATTGAAGACAGCAAAC
* ** * * * *
85559547 CTTATCTTCCTGGGGTAGTAGGGGAGCAGATTGAA-ACA-CCAGC
1 CTTATCTCCCTGAAGTAGCAGCGGAGCAGATTGAAGACAGCAAAC
* * * *
85559590 CTTATCTTCCTGAAGTTA-CAGC-GAACAGACTGAAGACAGCAAAT
1 CTTATCTCCCTGAAG-TAGCAGCGGAGCAGATTGAAGACAGCAAAC
* * * *
85559634 CTCATCTCCCTGAAGTAGCAGCGGAGCAGATTGAAGCCA-CCAGC
1 CTTATCTCCCTGAAGTAGCAGCGGAGCAGATTGAAGACAGCAAAC
* * * *
85559678 CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
1 CTTATCTCCCTGAAGTAGCAGCGGAGCAGATTGAAGACAGCAAAC
*
85559723 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAG
1 CTTATCTCCCTGAAGTAGCAGCGGAGCAGATTGAAG
85559759 CTACAAGTTG
Statistics
Matches: 167, Mismatches: 38, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
42 10 0.06
43 22 0.13
44 71 0.43
45 64 0.38
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTAGCAGCGGAGCAGATTGAAGACAGCAAAC
Found at i:85559730 original size:89 final size:88
Alignment explanation
Indices: 85559538--85559759 Score: 320
Period size: 89 Copynumber: 2.5 Consensus size: 88
85559528 TAGATTAAAA
* ** * * * * *
85559538 ACAGCAAATCTTATCTTCCTGGGGTAGTAGGGGAGCAGATTGAA-ACACCAGCCTTATCTTCCTG
1 ACAGCAAATCTTATCTCCCTGAAGTAGCAGCGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTA
85559602 AAGTTACAGCGAACAGACTGAAG
66 AAGTTACAGCGAACAGACTGAAG
*
85559625 ACAGCAAATCTCATCTCCCTGAAGTAGCAGCGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTA
1 ACAGCAAATCTTATCTCCCTGAAGTAGCAGCGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTA
* *
85559690 AAGTTGCAGCGGAGCAGACTGAAG
66 AAGTTACAGC-GAACAGACTGAAG
*
85559714 ACAGCAAATCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGC
1 ACAGCAAATCTTATCTCCCTGAAGTAGCAGCGGAGCAGATTGAAGC
85559760 TACAAGTTGC
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
87 38 0.32
88 26 0.22
89 56 0.47
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (88 bp):
ACAGCAAATCTTATCTCCCTGAAGTAGCAGCGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTA
AAGTTACAGCGAACAGACTGAAG
Found at i:85561011 original size:27 final size:27
Alignment explanation
Indices: 85560973--85561034 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
85560963 CCCCCTTCTT
85560973 TTTTTTTTCTAAAACATGGAGAAAGTG
1 TTTTTTTTCTAAAACATGGAGAAAGTG
85561000 TTTTTTTTCTAAAACATGGAGAAAGTG
1 TTTTTTTTCTAAAACATGGAGAAAGTG
85561027 TTTTTTTT
1 TTTTTTTT
85561035 TTAATTTGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.48
Consensus pattern (27 bp):
TTTTTTTTCTAAAACATGGAGAAAGTG
Found at i:85561480 original size:3 final size:3
Alignment explanation
Indices: 85561472--85561807 Score: 124
Period size: 3 Copynumber: 112.3 Consensus size: 3
85561462 TTAATGTTCC
* * ** *
85561472 TAT TAT TATT TAT TAT TAT TAT TAC TGT TAT CCT TAT TAAT GTAT AAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT TAT
* * *
85561520 TAT TAT TAT TAT TTT CTAT TAT TAT TAT TAA TA- TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** * * * *
85561565 CCT TAT TAA TA- TAT TAT TAT TAT TTT GTAC T-T TAT TAT TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
* * * * * * *
85561609 TGT T-T TAT TAC TGT TAT TAT TAT CA- TAG TAT TA- AACT AAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT T-AT
* * *
85561653 TTT TA- TAC TAT TAT TA- TAT TATT TAT T-T TTT TAT T-T T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * ** * *
85561694 TTT TTT GTGT TTT TACT TAT TAT TAT TAC TAT TAT TAT TGC CAC TAT
1 TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
85561741 TAT TAT T-T TTT TAT TGAT TCT T-T TAT TAT TAAT TAA T-T TAG TATT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT TAT TA-T
85561786 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
85561808 TATATATGTT
Statistics
Matches: 251, Mismatches: 56, Indels: 52
0.70 0.16 0.14
Matches are distributed among these distances:
2 24 0.10
3 195 0.78
4 31 0.12
5 1 0.00
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:85561570 original size:23 final size:23
Alignment explanation
Indices: 85561544--85561587 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
85561534 TCTATTATTA
*
85561544 TTATTAATATATTATTTTTATCC
1 TTATTAATATATTATTATTATCC
85561567 TTATTAATATATTATTATTAT
1 TTATTAATATATTATTATTAT
85561588 TTTGTACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATTAATATATTATTATTATCC
Found at i:85561672 original size:8 final size:7
Alignment explanation
Indices: 85561661--85561810 Score: 50
Period size: 7 Copynumber: 21.4 Consensus size: 7
85561651 ATTTTTATAC
85561661 TATTATT
1 TATTATT
85561668 ATATTATT
1 -TATTATT
85561676 TATT-TT
1 TATTATT
85561682 T-TTATT
1 TATTATT
*
85561688 TTTTATT
1 TATTATT
85561695 T-TT-TT
1 TATTATT
*
85561700 GTGTT-TT
1 -TATTATT
85561707 TACTTA-T
1 TA-TTATT
85561714 TATTA-T
1 TATTATT
*
85561720 TACTA-T
1 TATTATT
85561726 TATTATT
1 TATTATT
* *
85561733 GCCACTA-T
1 --TATTATT
85561741 TATTATTT
1 TATTA-TT
*
85561749 TTTTATT
1 TATTATT
* *
85561756 GATTCTTT
1 TATT-ATT
85561764 TATTATT
1 TATTATT
*
85561771 AATTAATT
1 TATT-ATT
*
85561779 TAGTATT
1 TATTATT
85561786 TATTA-T
1 TATTATT
85561792 TATTATTAT
1 TATTA-T-T
85561801 TATTATT
1 TATTATT
85561808 TAT
1 TAT
85561811 ATATGTTTTA
Statistics
Matches: 109, Mismatches: 17, Indels: 33
0.69 0.11 0.21
Matches are distributed among these distances:
5 4 0.04
6 32 0.29
7 40 0.37
8 24 0.22
9 9 0.08
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.67
Consensus pattern (7 bp):
TATTATT
Found at i:85561790 original size:22 final size:22
Alignment explanation
Indices: 85561762--85561810 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
85561752 TATTGATTCT
85561762 TTTATTATTAATTAAT-TTAGTA
1 TTTATTATT-ATTAATATTAGTA
* *
85561784 TTTATTATTATTATTATTATTA
1 TTTATTATTATTAATATTAGTA
85561806 TTTAT
1 TTTAT
85561811 ATATGTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTATTATTATTAATATTAGTA
Found at i:85563830 original size:24 final size:24
Alignment explanation
Indices: 85563803--85563852 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
85563793 TTCAAACAAT
85563803 TAAACAATCTTTAATCAATGTCTA
1 TAAACAATCTTTAATCAATGTCTA
*
85563827 TAAATAATCTTTAATCAATGTCTA
1 TAAACAATCTTTAATCAATGTCTA
85563851 TA
1 TA
85563853 GTAAAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.14, G:0.04, T:0.40
Consensus pattern (24 bp):
TAAACAATCTTTAATCAATGTCTA
Found at i:85569728 original size:10 final size:11
Alignment explanation
Indices: 85569700--85569732 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
85569690 GGCTTACACC
85569700 AAAACCAAAAT
1 AAAACCAAAAT
85569711 AAAA-CAAAA-
1 AAAACCAAAAT
85569720 AAAACCAAAAT
1 AAAACCAAAAT
85569731 AA
1 AA
85569733 TTTAAAAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.20
10 10 0.50
11 6 0.30
ACGTcount: A:0.79, C:0.15, G:0.00, T:0.06
Consensus pattern (11 bp):
AAAACCAAAAT
Found at i:85571511 original size:14 final size:14
Alignment explanation
Indices: 85571492--85571518 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
85571482 TCAAAATTCC
85571492 TTTTATAAATATAG
1 TTTTATAAATATAG
85571506 TTTTATAAATATA
1 TTTTATAAATATA
85571519 CATCACTAAA
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:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (14 bp):
TTTTATAAATATAG
Found at i:85576677 original size:5 final size:5
Alignment explanation
Indices: 85576667--85576704 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
85576657 CTAAATCCGC
85576667 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AAT
85576705 TTTAAATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:85577237 original size:12 final size:13
Alignment explanation
Indices: 85577205--85577244 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
85577195 AGTTACACAT
*
85577205 TATTAATAATATA
1 TATTAATTATATA
*
85577218 TCTTAATTATATA
1 TATTAATTATATA
85577231 -ATTAATTATATA
1 TATTAATTATATA
85577243 TA
1 TA
85577245 CTATAATCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TATTAATTATATA
Found at i:85577813 original size:12 final size:13
Alignment explanation
Indices: 85577781--85577818 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
85577771 TATTATAAAA
85577781 ATATTATTTAATT
1 ATATTATTTAATT
85577794 ATATTA-TTAATT
1 ATATTATTTAATT
85577806 A-ATATATTTAATT
1 ATAT-TATTTAATT
85577819 TTAGAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.09
12 9 0.39
13 12 0.52
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATATTATTTAATT
Found at i:85580970 original size:129 final size:129
Alignment explanation
Indices: 85580813--85581063 Score: 403
Period size: 129 Copynumber: 1.9 Consensus size: 129
85580803 TAGTATCATG
* * *
85580813 CAAAAATAGAAAATAAAATCCCAAAACCAAAACAATTCAGATATTACAAAATGCTTAAACCTAAA
1 CAAAAATAGAAAATAAAATCCCAAAACCAAAACAATCCAAATATTACAAAATGCTTAAACCCAAA
85580878 TTTAAATAAATCAAACGAAACAAATTTATTGTAACCGAGCTCCCGTGGTACCGACCGTCTATGT
66 TTTAAATAAATCAAACGAAACAAATTTATTGTAACCGAGCTCCCGTGGTACCGACCGTCTATGT
**
85580942 CAAAAATAGAAAATAAAATCGTAAAACCAAAACAATCCAAATATTACAAAATGCTTAAACCCAAA
1 CAAAAATAGAAAATAAAATCCCAAAACCAAAACAATCCAAATATTACAAAATGCTTAAACCCAAA
* * * * * *
85581007 TTTAAATGAATCAAATGAAACAAGTTTGTTGTAATCGAGCTCTCGTGGTACCGACCG
66 TTTAAATAAATCAAACGAAACAAATTTATTGTAACCGAGCTCCCGTGGTACCGACCG
85581064 CCGATGTTGA
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 111 1.00
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (129 bp):
CAAAAATAGAAAATAAAATCCCAAAACCAAAACAATCCAAATATTACAAAATGCTTAAACCCAAA
TTTAAATAAATCAAACGAAACAAATTTATTGTAACCGAGCTCCCGTGGTACCGACCGTCTATGT
Found at i:85586762 original size:14 final size:14
Alignment explanation
Indices: 85586743--85586769 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
85586733 TATTATAATT
85586743 CTGGTATCTGGTAC
1 CTGGTATCTGGTAC
85586757 CTGGTATCTGGTA
1 CTGGTATCTGGTA
85586770 ACTGATAATC
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:0.15, C:0.19, G:0.30, T:0.37
Consensus pattern (14 bp):
CTGGTATCTGGTAC
Found at i:85595425 original size:22 final size:22
Alignment explanation
Indices: 85595400--85595446 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
85595390 GGGAGTTGGG
85595400 ATTTTGTATG-ATTTAATTCTTT
1 ATTTT-TATGAATTTAATTCTTT
*
85595422 ATTTTTTTGAATTTAATTCTTT
1 ATTTTTATGAATTTAATTCTTT
85595444 ATT
1 ATT
85595447 CCTTTTCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.66
Consensus pattern (22 bp):
ATTTTTATGAATTTAATTCTTT
Found at i:85596981 original size:7 final size:7
Alignment explanation
Indices: 85596969--85596996 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
85596959 TGACTAAATC
85596969 GCGTAAA
1 GCGTAAA
85596976 GCGTAAA
1 GCGTAAA
85596983 GCGTAAA
1 GCGTAAA
85596990 GCGTAAA
1 GCGTAAA
85596997 ACTTGTGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.29, T:0.14
Consensus pattern (7 bp):
GCGTAAA
Found at i:85598101 original size:24 final size:22
Alignment explanation
Indices: 85598073--85598161 Score: 81
Period size: 22 Copynumber: 3.9 Consensus size: 22
85598063 ATATATCAAT
85598073 TCGTAAGAGCTTACTATTCTTAGC
1 TCGTAAGAGCTTACTATTC--AGC
* * *
85598097 TCGTATGAGCTTACTGTTCAGT
1 TCGTAAGAGCTTACTATTCAGC
*
85598119 TCGTCAGAGCTTACTATTTCAGC
1 TCGTAAGAGCTTACTA-TTCAGC
* *
85598142 TC-AATAGAGCTTACTGTTCA
1 TCGTA-AGAGCTTACTATTCA
85598162 TCAGCTCAGG
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
22 19 0.36
23 17 0.32
24 17 0.32
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (22 bp):
TCGTAAGAGCTTACTATTCAGC
Found at i:85598158 original size:45 final size:46
Alignment explanation
Indices: 85598072--85598161 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 46
85598062 GATATATCAA
* *
85598072 TTCGTAAGAGCTTACTATTCTTAGCTCGTATGAGCTTACTGTTCAG
1 TTCGTAAGAGCTTACTATTCTCAGCTCATATGAGCTTACTGTTCAG
*
85598118 TTCGTCAGAGCTTACTATT-TCAGCTCA-ATAGAGCTTACTGTTCA
1 TTCGTAAGAGCTTACTATTCTCAGCTCATAT-GAGCTTACTGTTCA
85598162 TCAGCTCAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
44 2 0.05
45 20 0.50
46 18 0.45
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (46 bp):
TTCGTAAGAGCTTACTATTCTCAGCTCATATGAGCTTACTGTTCAG
Found at i:85602231 original size:34 final size:34
Alignment explanation
Indices: 85602185--85602273 Score: 153
Period size: 34 Copynumber: 2.6 Consensus size: 34
85602175 GCATGTGCAT
85602185 TATATG-TGCTGAATTGAGTTGTAAAGAAATATA
1 TATATGTTGCTGAATTGAGTTGTAAAGAAATATA
*
85602218 TATATGTTGCTGAATTGAATTGTAAAGAAATATA
1 TATATGTTGCTGAATTGAGTTGTAAAGAAATATA
*
85602252 TATATGTTGCTGAATTAAGTTG
1 TATATGTTGCTGAATTGAGTTG
85602274 AGCTTTGAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 6 0.12
34 46 0.88
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.39
Consensus pattern (34 bp):
TATATGTTGCTGAATTGAGTTGTAAAGAAATATA
Found at i:85603358 original size:25 final size:25
Alignment explanation
Indices: 85603324--85603376 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
85603314 ATTGAGATGA
*
85603324 TTTATTTGCTTATGGCTTACTAAGC
1 TTTATTTGCTTATGGCTTACTAAAC
85603349 TTTATTTGCTTATGGCTTACTAAAC
1 TTTATTTGCTTATGGCTTACTAAAC
85603374 TTT
1 TTT
85603377 CTAAGCTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (25 bp):
TTTATTTGCTTATGGCTTACTAAAC
Found at i:85603384 original size:25 final size:25
Alignment explanation
Indices: 85603331--85603385 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
85603321 TGATTTATTT
* **
85603331 GCTTATGGCTTACTAAGCTTTATTT
1 GCTTATGGCTTACTAAACTTTATAA
*
85603356 GCTTATGGCTTACTAAACTTTCTAA
1 GCTTATGGCTTACTAAACTTTATAA
85603381 GCTTA
1 GCTTA
85603386 CTCTGTGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.44
Consensus pattern (25 bp):
GCTTATGGCTTACTAAACTTTATAA
Found at i:85605178 original size:20 final size:22
Alignment explanation
Indices: 85605155--85605194 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
85605145 AAATAATACA
85605155 AAATAA-TTTAATT-TAATTTT
1 AAATAATTTTAATTATAATTTT
85605175 AAATAATTTTAATTATAATT
1 AAATAATTTTAATTATAATT
85605195 AAGAGTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AAATAATTTTAATTATAATTTT
Found at i:85606067 original size:17 final size:17
Alignment explanation
Indices: 85606045--85606088 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
85606035 TTACAATATT
*
85606045 TATTTTAATTATATAAA
1 TATTTTAATTATAAAAA
*
85606062 TATTTTTATT-TAAAAA
1 TATTTTAATTATAAAAA
*
85606078 TAATTTAATTA
1 TATTTTAATTA
85606089 ATTGAGTTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTTAATTATAAAAA
Found at i:85608390 original size:20 final size:22
Alignment explanation
Indices: 85608367--85608406 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
85608357 AAATAATACA
85608367 AAATAA-TTTAATT-TAATTTT
1 AAATAATTTTAATTATAATTTT
85608387 AAATAATTTTAATTATAATT
1 AAATAATTTTAATTATAATT
85608407 AAGAGTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AAATAATTTTAATTATAATTTT
Found at i:85609279 original size:17 final size:17
Alignment explanation
Indices: 85609257--85609300 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
85609247 TTACAATATT
*
85609257 TATTTTAATTATATAAA
1 TATTTTAATTATAAAAA
*
85609274 TATTTTTATT-TAAAAA
1 TATTTTAATTATAAAAA
*
85609290 TAATTTAATTA
1 TATTTTAATTA
85609301 ATTGAGTTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTTAATTATAAAAA
Found at i:85615147 original size:25 final size:25
Alignment explanation
Indices: 85615117--85615166 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
85615107 TCATTAAGTC
85615117 CATCTTTAAATCTTCTACACATCTT
1 CATCTTTAAATCTTCTACACATCTT
85615142 CATCTTTAAATCTTCTACACATCTT
1 CATCTTTAAATCTTCTACACATCTT
85615167 AGCCTCGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (25 bp):
CATCTTTAAATCTTCTACACATCTT
Found at i:85617495 original size:40 final size:40
Alignment explanation
Indices: 85617451--85617683 Score: 414
Period size: 40 Copynumber: 5.8 Consensus size: 40
85617441 GGATATAGCT
* * *
85617451 ACTCGCTCAATTGCCTTTGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
85617491 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
85617531 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
85617571 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
85617611 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
85617651 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
85617684 TATCATCCGA
Statistics
Matches: 188, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
40 186 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:85627089 original size:28 final size:28
Alignment explanation
Indices: 85627047--85627115 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
85627037 ATTGCATGAC
*
85627047 TATGAATGTGGTTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
85627075 TATGAATGTGATTGGGCGTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
85627103 TATGAATGAGATT
1 TATGAATGTGATT
85627116 TGACCTAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.23, C:0.10, G:0.36, T:0.30
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:85636913 original size:29 final size:28
Alignment explanation
Indices: 85636851--85636913 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
85636841 TTGCATGACT
* * *
85636851 ATGAATGTGATTGGGCCTGACGGGCCAT
1 ATGAATGAGATTGGGCCTAACGGGCCAA
*
85636879 ATGAATGAGATTGGGCCTAAAGGGGCCAA
1 ATGAATGAGATTGGGCCT-AACGGGCCAA
85636908 ATGAAT
1 ATGAAT
85636914 AAGTGTGGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 17 0.57
29 13 0.43
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.22
Consensus pattern (28 bp):
ATGAATGAGATTGGGCCTAACGGGCCAA
Found at i:85656762 original size:23 final size:23
Alignment explanation
Indices: 85656721--85656764 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
85656711 AACCCCTAAT
*
85656721 ATGCATAATTGTATGATTTATGA
1 ATGCATAATGGTATGATTTATGA
85656744 ATGCATAATGGT-TGAATTTAT
1 ATGCATAATGGTATG-ATTTAT
85656765 TATTGGCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (23 bp):
ATGCATAATGGTATGATTTATGA
Found at i:85659636 original size:43 final size:43
Alignment explanation
Indices: 85659532--85659678 Score: 152
Period size: 43 Copynumber: 3.4 Consensus size: 43
85659522 TATCCTAGAT
* * * * *
85659532 ATGGTGTTACATGTTATCAT-ATATCGATGCCACTATCCCAAAC
1 ATGGTCTTACATGTAATCATAATA-CGATGCCAATGTCCCAGAC
* *** *
85659575 AGGGTCTTACACAAAATCATAATACGATACCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCATAATACGATGCCAATGTCCCAGAC
* **
85659618 ATGGTCTTACATGTAATCACAATATAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCATAATACGATGCCAATGTCCCAGAC
*
85659661 ATGGTCTTACTTGTAATC
1 ATGGTCTTACATGTAATC
85659679 TCATCTTGAT
Statistics
Matches: 84, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
43 81 0.96
44 3 0.04
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCATAATACGATGCCAATGTCCCAGAC
Found at i:85670055 original size:68 final size:67
Alignment explanation
Indices: 85669983--85670132 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
85669973 CATCATGTGT
* * * *
85669983 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
85670045 ATGTAG
62 ATGTAG
** * *
85670051 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
85670116 AG
66 AG
85670118 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
85670133 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:85670088 original size:64 final size:64
Alignment explanation
Indices: 85670007--85670190 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
85669997 AGACATTATG
* *
85670007 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
85670071 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
85670136 AA
63 AA
* * * *
85670138 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
85670191 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:85678897 original size:17 final size:17
Alignment explanation
Indices: 85678875--85678917 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
85678865 GGTTTACTCG
85678875 TGTGGGGCCCACATCCC
1 TGTGGGGCCCACATCCC
85678892 TGTGGGGCCCACATCCC
1 TGTGGGGCCCACATCCC
85678909 TGTGGGGCC
1 TGTGGGGCC
85678918 TACACGGCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.09, C:0.37, G:0.35, T:0.19
Consensus pattern (17 bp):
TGTGGGGCCCACATCCC
Found at i:85683058 original size:15 final size:15
Alignment explanation
Indices: 85683040--85683069 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
85683030 CTTATAAACA
85683040 TCAGTCTCTTTAACC
1 TCAGTCTCTTTAACC
85683055 TCAGTCTCTTTAACC
1 TCAGTCTCTTTAACC
85683070 ATCATTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (15 bp):
TCAGTCTCTTTAACC
Found at i:85686790 original size:3 final size:3
Alignment explanation
Indices: 85686782--85686826 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
85686772 ATATACTAAT
* * *
85686782 TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TTA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
85686827 ATATCTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:85687063 original size:3 final size:3
Alignment explanation
Indices: 85687055--85687083 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
85687045 GATTTATTTG
85687055 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
85687084 TTAATAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:85690919 original size:34 final size:34
Alignment explanation
Indices: 85690881--85690959 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
85690871 ACAGTTAATA
*
85690881 ATCCAGCACATCAGA-TGCTCCTATAAGCTAAACC
1 ATCCAGCACACCA-ATTGCTCCTATAAGCTAAACC
* * *
85690915 ATCCAGCACACCAATTGCTCGTATGAGTTAAACC
1 ATCCAGCACACCAATTGCTCCTATAAGCTAAACC
*
85690949 ATCCAACACAC
1 ATCCAGCACAC
85690960 TAAATAATAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 1 0.03
34 38 0.97
ACGTcount: A:0.35, C:0.33, G:0.11, T:0.20
Consensus pattern (34 bp):
ATCCAGCACACCAATTGCTCCTATAAGCTAAACC
Found at i:85693457 original size:81 final size:81
Alignment explanation
Indices: 85693322--85693483 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
85693312 TCCTTTCACT
85693322 CTCCTATGCTCACCTAAGTATAAAACATGAAATTAAGGCATTAGGAGCATCGAATTCACCAATTT
1 CTCCTATGCTCACCTAAGTATAAAACATGAAATTAAGGCATTAGGAGCATCGAATTCACCAATTT
*
85693387 TAAGGTAAAATCATCC
66 TAAGGAAAAATCATCC
85693403 CTCCTATGCTCACCTAAGTATAAAACATGAAATTAAGGCATTAGGAGCATCGAATTCACCAATTT
1 CTCCTATGCTCACCTAAGTATAAAACATGAAATTAAGGCATTAGGAGCATCGAATTCACCAATTT
85693468 TAAGGAAAAATCATCC
66 TAAGGAAAAATCATCC
85693484 ATAAAATGTG
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.27
Consensus pattern (81 bp):
CTCCTATGCTCACCTAAGTATAAAACATGAAATTAAGGCATTAGGAGCATCGAATTCACCAATTT
TAAGGAAAAATCATCC
Found at i:85694147 original size:4 final size:4
Alignment explanation
Indices: 85694138--85694165 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
85694128 TGTATACATG
85694138 TATT TATT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT
85694166 AAGAACAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:85702452 original size:39 final size:40
Alignment explanation
Indices: 85702357--85702618 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
85702347 TTGAATGATG
*
85702357 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
85702395 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
85702436 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
85702475 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
85702514 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
85702553 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
85702592 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
85702619 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:85709627 original size:22 final size:22
Alignment explanation
Indices: 85709592--85709644 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
85709582 ATAATTCATC
*
85709592 AAAATATATGCTAAGTATGGGAT
1 AAAA-ATATACTAAGTATGGGAT
85709615 AAAAATATACTAAGTATGGGAT
1 AAAAATATACTAAGTATGGGAT
85709637 AAAAATAT
1 AAAAATAT
85709645 GTATAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 25 0.86
23 4 0.14
ACGTcount: A:0.51, C:0.04, G:0.17, T:0.28
Consensus pattern (22 bp):
AAAAATATACTAAGTATGGGAT
Found at i:85710363 original size:20 final size:20
Alignment explanation
Indices: 85710335--85710388 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
85710325 AACAGGGGTC
* *
85710335 ACACGCCTGTTTGGCTTGGG
1 ACACGCCTGTGTGGCTCGGG
*
85710355 ACACTCCTGTGTGGCTCGGG
1 ACACGCCTGTGTGGCTCGGG
*
85710375 ACACGCCCGTGTGG
1 ACACGCCTGTGTGG
85710389 GCAGGTCATG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.11, C:0.30, G:0.35, T:0.24
Consensus pattern (20 bp):
ACACGCCTGTGTGGCTCGGG
Found at i:85711585 original size:43 final size:42
Alignment explanation
Indices: 85711515--85711641 Score: 148
Period size: 42 Copynumber: 3.0 Consensus size: 42
85711505 CACACAGTAC
* * * *
85711515 CATATCAATGCCATATCCTAGATATGGTCTTACATGTAATCT
1 CATATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCT
* *
85711557 CGTATCGATGCCAATAGCCCAGCTATGGTCTTACACG-AAGTCT
1 CATATCGATGCC-ATAGCCCAGATATGGTCTTACACGTAA-TCT
* * *
85711600 CATATCGATGTCATATCCCAGATATGGTCTTGCACGTAATCT
1 CATATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCT
85711642 TAGTAACCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 36 0.51
43 35 0.49
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
CATATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCT
Found at i:85722494 original size:29 final size:30
Alignment explanation
Indices: 85722461--85722518 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
85722451 GAATTATTTT
* *
85722461 TAAAAATTGGTTG-CTCTTTTTATAAATAA
1 TAAAAATTAGATGCCTCTTTTTATAAATAA
*
85722490 TAAAAATTAGATGCCTCTTTTTGTAAATA
1 TAAAAATTAGATGCCTCTTTTTATAAATA
85722519 TTTCCAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (30 bp):
TAAAAATTAGATGCCTCTTTTTATAAATAA
Found at i:85722803 original size:17 final size:18
Alignment explanation
Indices: 85722777--85722810 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
85722767 TTTTTGTTTA
85722777 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
85722794 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
85722811 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:85729984 original size:27 final size:27
Alignment explanation
Indices: 85729942--85730301 Score: 475
Period size: 27 Copynumber: 13.6 Consensus size: 27
85729932 TACCGGAACT
* * *
85729942 CTTATGTGACAAAATGATGATTTTTCC
1 CTTATGTGATAAAATGACGATTTTGCC
* * *
85729969 CTCATATGATAAAATGATGATTTTGCC
1 CTTATGTGATAAAATGACGATTTTGCC
*
85729996 CTTATGTGATAAAATGATGATTTTGCC
1 CTTATGTGATAAAATGACGATTTTGCC
*
85730023 CTTATGTAATAAAATGACGATTTTG-C
1 CTTATGTGATAAAATGACGATTTTGCC
* *
85730049 TTTATGTGATAAAATGACGAATTTGCC
1 CTTATGTGATAAAATGACGATTTTGCC
* *
85730076 TTTATATGATAAAATGACGAATTTT-CC
1 CTTATGTGATAAAATGACG-ATTTTGCC
85730103 CTTATGTGATAAAATGACGATTTTGCC
1 CTTATGTGATAAAATGACGATTTTGCC
85730130 CTTATGTG-----ATGACGATTTTGCC
1 CTTATGTGATAAAATGACGATTTTGCC
* *
85730152 CTTATATAATAAAATGACGATTTTGCC
1 CTTATGTGATAAAATGACGATTTTGCC
85730179 CTTATGTGATAAAATGACGATTTTGCC
1 CTTATGTGATAAAATGACGATTTTGCC
*
85730206 CTTATGTGATAAAATGATGATTTTGCC
1 CTTATGTGATAAAATGACGATTTTGCC
* *
85730233 CATATGTGATAAAATGACAATTTT-CC
1 CTTATGTGATAAAATGACGATTTTGCC
* * *
85730259 CATATGTGATAAAATGACAATTTTTCC
1 CTTATGTGATAAAATGACGATTTTGCC
85730286 CTTATGTGATAAAATG
1 CTTATGTGATAAAATG
85730302 CCCAAAATAC
Statistics
Matches: 300, Mismatches: 24, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
22 20 0.07
26 54 0.18
27 222 0.74
28 4 0.01
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (27 bp):
CTTATGTGATAAAATGACGATTTTGCC
Found at i:85730271 original size:156 final size:156
Alignment explanation
Indices: 85729982--85730295 Score: 486
Period size: 156 Copynumber: 2.0 Consensus size: 156
85729972 ATATGATAAA
* * * *
85729982 ATGATGATTTTGCCCTTATGTGATAAAATGATGATTTTGCCCTTATGTAATAAAATGACGATTTT
1 ATGACGATTTTGCCCTTATATAATAAAATGACGATTTTGCCCTTATGTAATAAAATGACGATTTT
* ** *
85730047 GCTTTATGTGATAAAATGACGAATTTGCCTTTATATGATAAAATGACGAATTTTCCCTTATGTGA
66 GCCTTATGTGATAAAATGACGAATTTGCCCATATATGATAAAATGACGAATTTTCCCATATGTGA
*
85730112 TAAAATGACGATTTTGCCCTTATGTG
131 TAAAATGACAATTTTGCCCTTATGTG
*
85730138 ATGACGATTTTGCCCTTATATAATAAAATGACGATTTTGCCCTTATGTGATAAAATGACGATTTT
1 ATGACGATTTTGCCCTTATATAATAAAATGACGATTTTGCCCTTATGTAATAAAATGACGATTTT
* * *
85730203 GCCCTTATGTGATAAAATGATGATTTTGCCCATATGTGATAAAATGAC-AATTTTCCCATATGTG
66 G-CCTTATGTGATAAAATGACGAATTTGCCCATATATGATAAAATGACGAATTTTCCCATATGTG
*
85730267 ATAAAATGACAATTTTTCCCTTATGTG
130 ATAAAATGACAATTTTGCCCTTATGTG
85730294 AT
1 AT
85730296 AAAATGCCCA
Statistics
Matches: 143, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
156 103 0.72
157 40 0.28
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (156 bp):
ATGACGATTTTGCCCTTATATAATAAAATGACGATTTTGCCCTTATGTAATAAAATGACGATTTT
GCCTTATGTGATAAAATGACGAATTTGCCCATATATGATAAAATGACGAATTTTCCCATATGTGA
TAAAATGACAATTTTGCCCTTATGTG
Found at i:85730286 original size:183 final size:183
Alignment explanation
Indices: 85729955--85730301 Score: 536
Period size: 183 Copynumber: 1.9 Consensus size: 183
85729945 ATGTGACAAA
* * * * *
85729955 ATGATGATTTTTCCCTCATATGATAAAATGATGATTTTGCCCTTATGTGATAAAATGATGATTTT
1 ATGACGATTTTGCCCTCATATAATAAAATGACGATTTTGCCCTTATGTGATAAAATGACGATTTT
** **
85730020 GCCCTTATGTAATAAAATGACGATTTTGCTTTATGTGATAAAATGACGAATTTGCCTTTATATGA
66 GCCCTTATGTAATAAAATGACGATTTTGCCATATGTGATAAAATGACGAATTTGCCCATATATGA
85730085 TAAAATGACGAATTTTCCCTTATGTGATAAAATGACGATTTTGCCCTTATGTG
131 TAAAATGACGAATTTTCCCTTATGTGATAAAATGACGATTTTGCCCTTATGTG
*
85730138 ATGACGATTTTGCCCTTATATAATAAAATGACGATTTTGCCCTTATGTGATAAAATGACGATTTT
1 ATGACGATTTTGCCCTCATATAATAAAATGACGATTTTGCCCTTATGTGATAAAATGACGATTTT
* * * *
85730203 GCCCTTATGTGATAAAATGATGATTTTGCCCATATGTGATAAAATGAC-AATTTTCCCATATGTG
66 GCCCTTATGTAATAAAATGACGATTTTG-CCATATGTGATAAAATGACGAATTTGCCCATATATG
85730267 ATAAAATGAC-AATTTTTCCCTTATGTGATAAAATG
130 ATAAAATGACGAA-TTTTCCCTTATGTGATAAAATG
85730302 CCCAAAATAC
Statistics
Matches: 148, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
182 2 0.01
183 129 0.87
184 17 0.11
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (183 bp):
ATGACGATTTTGCCCTCATATAATAAAATGACGATTTTGCCCTTATGTGATAAAATGACGATTTT
GCCCTTATGTAATAAAATGACGATTTTGCCATATGTGATAAAATGACGAATTTGCCCATATATGA
TAAAATGACGAATTTTCCCTTATGTGATAAAATGACGATTTTGCCCTTATGTG
Found at i:85730326 original size:80 final size:81
Alignment explanation
Indices: 85730001--85730330 Score: 234
Period size: 80 Copynumber: 4.2 Consensus size: 81
85729991 TTGCCCTTAT
** * * * *
85730001 GTGATAAAATGATGATTTTGCCCTTATGTAATAAAATGACGATTTTG-CTTTATGTGATAAAATG
1 GTGATAAAATGACAATTTTGCCCATATGTGATAAAATGACAATTTTGCCCTTATGTGATAAAATG
* * ** **
85730065 ACGAATTTGCCTTTATA
66 ACAAAATACCCCATA-A
* *
85730082 -TGATAAAATGACGAATTTT-CCCTTATGTGATAAAATGACGATTTTGCCCTTATGTG-----AT
1 GTGATAAAATGAC-AATTTTGCCCATATGTGATAAAATGACAATTTTGCCCTTATGTGATAAAAT
* ** ** *
85730140 GACGATTTTGCCCTTATA
65 GACAAAATACCCCATA-A
* * * *
85730158 -TAATAAAATGACGATTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGTGATAAAATG
1 GTGATAAAATGACAATTTTGCCCATATGTGATAAAATGACAATTTTGCCCTTATGTGATAAAATG
** ** ** *
85730222 ATGATTTTGCCCATAT
66 ACAAAATACCCCATAA
*
85730238 GTGATAAAATGACAATTTT-CCCATATGTGATAAAATGACAATTTTTCCCTTATGTGATAAAATG
1 GTGATAAAATGACAATTTTGCCCATATGTGATAAAATGACAATTTTGCCCTTATGTGATAAAATG
*
85730302 CCCAAAATACCCTCATAA
66 -ACAAAATACCC-CATAA
85730320 G-G-TAAAATGAC
1 GTGATAAAATGAC
85730331 TGCAATACCC
Statistics
Matches: 214, Mismatches: 24, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
75 5 0.02
76 66 0.31
80 88 0.41
81 50 0.23
82 5 0.02
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (81 bp):
GTGATAAAATGACAATTTTGCCCATATGTGATAAAATGACAATTTTGCCCTTATGTGATAAAATG
ACAAAATACCCCATAA
Found at i:85730328 original size:210 final size:210
Alignment explanation
Indices: 85729952--85730330 Score: 535
Period size: 210 Copynumber: 1.8 Consensus size: 210
85729942 CTTATGTGAC
* * *
85729952 AAAATGATGATTTTTCCCTCATATGATAAAATGATGATTTTGCCCTTATGTGATAAAATGATGAT
1 AAAATGACGATTTTGCCCTCATATGATAAAATGACGATTTTGCCCTTATGTGATAAAATGATGAT
* * * ** *
85730017 TTTGCCCTTATGTAATAAAATGACGATTTTGCTTTATGTGATAAAATGACGAATTTGCCTTTATA
66 TTTGCCCATATGTAATAAAATGACAATTTTCCCATATGTGATAAAATGACGAATTTGCCCTTATA
* ** * * **
85730082 TGATAAAATGACGAATTTTCCCTTATGTGATAAAATGACGATTTTGCCCTTATGTGATGACGATT
131 TGATAAAATGACCAAAATACCCTCATAAGATAAAATGACGATTTTGCCCTTATGTGATGACGATT
85730147 TTGCCCTTATATAAT
196 TTGCCCTTATATAAT
* *
85730162 AAAATGACGATTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGTGATAAAATGATGAT
1 AAAATGACGATTTTGCCCTCATATGATAAAATGACGATTTTGCCCTTATGTGATAAAATGATGAT
* *
85730227 TTTGCCCATATGTGATAAAATGACAATTTTCCCATATGTGATAAAATGAC-AATTTTTCCCTTAT
66 TTTGCCCATATGTAATAAAATGACAATTTTCCCATATGTGATAAAATGACGAA-TTTGCCCTTAT
* * *
85730291 GTGATAAAATGCCCAAAATACCCTCATAAGGTAAAATGAC
130 ATGATAAAATGACCAAAATACCCTCATAAGATAAAATGAC
85730331 TGCAATACCC
Statistics
Matches: 145, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
209 2 0.01
210 143 0.99
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (210 bp):
AAAATGACGATTTTGCCCTCATATGATAAAATGACGATTTTGCCCTTATGTGATAAAATGATGAT
TTTGCCCATATGTAATAAAATGACAATTTTCCCATATGTGATAAAATGACGAATTTGCCCTTATA
TGATAAAATGACCAAAATACCCTCATAAGATAAAATGACGATTTTGCCCTTATGTGATGACGATT
TTGCCCTTATATAAT
Found at i:85737517 original size:43 final size:43
Alignment explanation
Indices: 85737469--85737577 Score: 123
Period size: 43 Copynumber: 2.5 Consensus size: 43
85737459 TCCTAGATAT
* * * *
85737469 GGTCTTACATGTTATCACATATCGATGCCACTGTCCCA-AGCAG
1 GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGA-CAC
* * *
85737512 GGTCTTACACGTAATCGA-TTAACGATTCCAATGTCCCAGACAC
1 GGTCTTACACGTAATC-ACATATCGATGCCAATGTCCCAGACAC
85737555 GGTCTTACACGTAATCACATATC
1 GGTCTTACACGTAATCACATATC
85737578 TGTAACCTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
42 1 0.02
43 51 0.94
44 2 0.04
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACAC
Found at i:85744474 original size:46 final size:48
Alignment explanation
Indices: 85744370--85744483 Score: 144
Period size: 48 Copynumber: 2.4 Consensus size: 48
85744360 TGTCTTCGAC
** *
85744370 ATGGACTTACATGAATTATTCCTATCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTATCTCCAATGCCATATATATATAAT
* * *
85744418 ATGGGCTTACATGGCTCATTCCTATCTCCGAA-GCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTATCTCC-AATGCCATATATATATAAT
85744464 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
85744484 TCTGTCCTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 22 0.38
47 1 0.02
48 33 0.57
49 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTATCTCCAATGCCATATATATATAAT
Found at i:85744495 original size:5 final size:5
Alignment explanation
Indices: 85744485--85744509 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
85744475 TGGCTCATTT
85744485 CTGTC CTGTC CTGTC CTGTC CTGTC
1 CTGTC CTGTC CTGTC CTGTC CTGTC
85744510 AACCCCAATA
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:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (5 bp):
CTGTC
Found at i:85748699 original size:40 final size:40
Alignment explanation
Indices: 85748637--85748814 Score: 261
Period size: 40 Copynumber: 4.5 Consensus size: 40
85748627 AAGCCAAGTA
* * *
85748637 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
85748676 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
85748716 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
85748756 CCTTCGGGACTTAGCCCAGATATAGTAGCTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
85748796 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
85748815 TTATCATCCA
Statistics
Matches: 126, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.10
40 114 0.90
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:85750086 original size:10 final size:10
Alignment explanation
Indices: 85750071--85750100 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
85750061 CATGAGAGCT
85750071 TTTTTCTTTC
1 TTTTTCTTTC
85750081 TTTTTCTTTC
1 TTTTTCTTTC
85750091 TCTTTTCTTT
1 T-TTTTCTTT
85750101 TTTCATCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:85752007 original size:46 final size:48
Alignment explanation
Indices: 85751903--85752016 Score: 151
Period size: 48 Copynumber: 2.4 Consensus size: 48
85751893 TGTCTTTGAC
** * *
85751903 ATGGACTTACATGAATTATTCCTATCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTATCTCCAAAGCCATATATATATAAT
* * *
85751951 ATGGGCTTACATGGCTCATTCCTATCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTATCTCCAAAGCCATATATATATAAT
85751997 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
85752017 TCTGTCCTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 22 0.38
47 1 0.02
48 35 0.60
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTATCTCCAAAGCCATATATATATAAT
Found at i:85762628 original size:43 final size:43
Alignment explanation
Indices: 85762573--85762739 Score: 162
Period size: 43 Copynumber: 3.9 Consensus size: 43
85762563 CACTCGTTCA
* * *
85762573 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * * *
85762615 ATGCCATTGTCCCAGATAGGGTCTTACAGGTAATCGA-TTAAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC-ACAT-ATCG
* * *
85762658 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
* *
85762701 ATGCCAATGTCCTAGACCTGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
85762740 TTCTGTAACC
Statistics
Matches: 101, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
43 91 0.90
44 3 0.03
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:85762726 original size:86 final size:85
Alignment explanation
Indices: 85762573--85762735 Score: 193
Period size: 86 Copynumber: 1.9 Consensus size: 85
85762563 CACTCGTTCA
* * * * * *
85762573 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCGATGCCATTGTCCCAGATAGGGTC
1 ATGCCATATCCCAGACATGGTCTTACACGTAATCACATATCAATGCCAATGTCCCAGACAGGGTC
85762638 TTACAGGTAATCGATTAATG
66 TTACAGGTAATCGATTAATG
* * * **
85762658 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCA-ATACAATGCCAATGTCCTAGACCTGG
1 ATGCC-ATATCCCAGACATGGTCTTACACGTAATCACATAT-CAATGCCAATGTCCCAGACAGGG
*
85762722 TCTTACATGTAATC
64 TCTTACAGGTAATC
85762736 ACATTTCTGT
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
85 7 0.11
86 57 0.89
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (85 bp):
ATGCCATATCCCAGACATGGTCTTACACGTAATCACATATCAATGCCAATGTCCCAGACAGGGTC
TTACAGGTAATCGATTAATG
Found at i:85770873 original size:15 final size:17
Alignment explanation
Indices: 85770843--85770874 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
85770833 TTGACACTTG
85770843 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
85770860 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
85770875 AAACATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:85773818 original size:13 final size:11
Alignment explanation
Indices: 85773788--85773829 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
85773778 GTACAAAGCT
85773788 CATAAGAACATA
1 CATAA-AACATA
85773800 -ATAAAACCATA
1 CATAAAA-CATA
85773811 CTATAAAACATA
1 C-ATAAAACATA
85773823 CATAAAA
1 CATAAAA
85773830 ACATTGGCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 2 0.07
11 14 0.52
12 5 0.19
13 6 0.22
ACGTcount: A:0.62, C:0.17, G:0.02, T:0.19
Consensus pattern (11 bp):
CATAAAACATA
Found at i:85773830 original size:12 final size:12
Alignment explanation
Indices: 85773788--85773833 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
85773778 GTACAAAGCT
*
85773788 CATAAGAACATA
1 CATAAAAACATA
*
85773800 -ATAAAACCATA
1 CATAAAAACATA
85773811 C-TATAAAACATA
1 CATA-AAAACATA
85773823 CATAAAAACAT
1 CATAAAAACAT
85773834 TGGCTCGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
11 11 0.39
12 15 0.54
13 2 0.07
ACGTcount: A:0.61, C:0.17, G:0.02, T:0.20
Consensus pattern (12 bp):
CATAAAAACATA
Found at i:85786840 original size:12 final size:13
Alignment explanation
Indices: 85786822--85786853 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
85786812 TCGATATCTC
85786822 AATTTCAATTCAT
1 AATTTCAATTCAT
85786835 -ATTTCAATTCAT
1 AATTTCAATTCAT
85786847 AATTTCA
1 AATTTCA
85786854 CTTTCTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTTCAATTCAT
Found at i:85787259 original size:21 final size:21
Alignment explanation
Indices: 85787204--85787259 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
85787194 AGTAGTATAT
*
85787204 GACACATAAAGTGCCTGAAAC
1 GACACATATAGTGCCTGAAAC
** *
85787225 GACACACGTGGTGCCT-AATAC
1 GACACATATAGTGCCTGAA-AC
85787246 GACACATATAGTGC
1 GACACATATAGTGC
85787260 TTGATCGGAA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (21 bp):
GACACATATAGTGCCTGAAAC
Found at i:85788083 original size:11 final size:11
Alignment explanation
Indices: 85788067--85788091 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
85788057 TTAAATTTTC
85788067 CTATTCAATTT
1 CTATTCAATTT
85788078 CTATTCAATTT
1 CTATTCAATTT
85788089 CTA
1 CTA
85788092 CCTTAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (11 bp):
CTATTCAATTT
Found at i:85788564 original size:11 final size:11
Alignment explanation
Indices: 85788543--85788572 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
85788533 TATTTCATAG
85788543 TATAA-TATAA
1 TATAATTATAA
85788553 TATAATTATAA
1 TATAATTATAA
85788564 TATAATTAT
1 TATAATTAT
85788573 TACAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TATAATTATAA
Found at i:85792950 original size:21 final size:21
Alignment explanation
Indices: 85792924--85792965 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
85792914 TAGATATCGT
* *
85792924 TAAATATGATATTAAAGAAAA
1 TAAATATGATATAAAAAAAAA
85792945 TAAATATGATATAAAAAAAAA
1 TAAATATGATATAAAAAAAAA
85792966 AAAAGAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (21 bp):
TAAATATGATATAAAAAAAAA
Done.