Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 307 of 438
Found at i:95900493 original size:39 final size:40
Alignment explanation
Indices: 95900347--95900497 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
95900337 ATCACGATTT
* * * *
95900347 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
95900387 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
95900427 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
95900466 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
95900498 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:95908420 original size:40 final size:40
Alignment explanation
Indices: 95908361--95908491 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
95908351 CGGGACTTTA
* * *
95908361 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
95908401 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
95908441 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
95908481 CCCGGATATAA
1 CCCGGATATAA
95908492 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:95908524 original size:39 final size:40
Alignment explanation
Indices: 95908378--95908528 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
95908368 ATCACGATTT
* * * *
95908378 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
95908418 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
95908458 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
95908497 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
95908529 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:95910547 original size:26 final size:26
Alignment explanation
Indices: 95910511--95910655 Score: 159
Period size: 26 Copynumber: 5.7 Consensus size: 26
95910501 AATCAAATCA
*
95910511 AATATAAAAAACAATTTAAAATAAAT
1 AATATATAAAACAATTTAAAATAAAT
*
95910537 AATATATAAAACAATTTGAAATAAAT
1 AATATATAAAACAATTTAAAATAAAT
* * * **
95910563 AACATATAAGACAATTTAAAGTAACC
1 AATATATAAAACAATTTAAAATAAAT
* *
95910589 AGTATATAAAACGA--TAAAATAAAT
1 AATATATAAAACAATTTAAAATAAAT
* *
95910613 AGTATATAAAACAGTTTAAAATAAAT
1 AATATATAAAACAATTTAAAATAAAT
* *
95910639 AATATAAAAAATAATTT
1 AATATATAAAACAATTT
95910656 GAAGCTACAA
Statistics
Matches: 96, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
24 19 0.20
26 77 0.80
ACGTcount: A:0.61, C:0.06, G:0.05, T:0.28
Consensus pattern (26 bp):
AATATATAAAACAATTTAAAATAAAT
Found at i:95910606 original size:24 final size:24
Alignment explanation
Indices: 95910579--95910624 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
95910569 TAAGACAATT
* *
95910579 TAAAGTAACCAGTATATAAAACGA
1 TAAAATAAACAGTATATAAAACGA
*
95910603 TAAAATAAATAGTATATAAAAC
1 TAAAATAAACAGTATATAAAAC
95910625 AGTTTAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.24
Consensus pattern (24 bp):
TAAAATAAACAGTATATAAAACGA
Found at i:95912910 original size:48 final size:47
Alignment explanation
Indices: 95912818--95912933 Score: 126
Period size: 48 Copynumber: 2.4 Consensus size: 47
95912808 ATCGGTGTCG
* * *
95912818 ATGCCATGTCCCAGACATGGTTTATATGGGACTTCACATTGATGCCA
1 ATGCCATATCCCAGACATGGTTTACATGGGACTTCACACTGATGCCA
* * * *
95912865 ATGCCATATCCTAGATATGGTATTACATGGGA-TCTCATACTGATGCCG
1 ATGCCATATCCCAGACATGGT-TTACATGGGACT-TCACACTGATGCCA
* *
95912913 ATGCCATGTCCCAAACATGGT
1 ATGCCATATCCCAGACATGGT
95912934 CTTATACGAA
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
47 19 0.34
48 37 0.66
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (47 bp):
ATGCCATATCCCAGACATGGTTTACATGGGACTTCACACTGATGCCA
Found at i:95914203 original size:18 final size:18
Alignment explanation
Indices: 95914180--95914219 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
95914170 CTTAAAACTT
95914180 TATCGAGAGGAATATTTC
1 TATCGAGAGGAATATTTC
95914198 TATCGAGAGGAATATTTC
1 TATCGAGAGGAATATTTC
95914216 TATC
1 TATC
95914220 TCAGATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (18 bp):
TATCGAGAGGAATATTTC
Found at i:95914488 original size:2 final size:2
Alignment explanation
Indices: 95914481--95914520 Score: 53
Period size: 2 Copynumber: 19.5 Consensus size: 2
95914471 GGTTTGTATT
* *
95914481 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA CTA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA T
95914521 TTGAAGTAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:95919439 original size:28 final size:26
Alignment explanation
Indices: 95919390--95919441 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
95919380 ATAAATTTAG
95919390 ATTTTTTTTAGGATTTACAAAATATA
1 ATTTTTTTTAGGATTTACAAAATATA
* *
95919416 ATTTTTTGTTATGACTTTATAAAATA
1 ATTTTTT-TTAGGA-TTTACAAAATA
95919442 CACAAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 5 0.23
28 10 0.45
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.52
Consensus pattern (26 bp):
ATTTTTTTTAGGATTTACAAAATATA
Found at i:95921125 original size:2 final size:2
Alignment explanation
Indices: 95921118--95921149 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
95921108 TTTAGCTTAA
95921118 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95921150 TAGTGGGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95925395 original size:25 final size:25
Alignment explanation
Indices: 95925290--95925397 Score: 92
Period size: 25 Copynumber: 4.3 Consensus size: 25
95925280 CTTGGTAATC
*
95925290 AAATGTCATTC-TGATTCTGAAAATG
1 AAATGTCA-TCATGATTTTGAAAATG
* * * * *
95925315 ATATGTTATAATGATTTTGATAATA
1 AAATGTCATCATGATTTTGAAAATG
* * ** *
95925340 AAATGTCATTATGATCTTGGTAATC
1 AAATGTCATCATGATTTTGAAAATG
95925365 AAATGTCATCATGATTTTGAAAATG
1 AAATGTCATCATGATTTTGAAAATG
*
95925390 ATATGTCA
1 AAATGTCA
95925398 AATTGGTTAT
Statistics
Matches: 64, Mismatches: 18, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
24 1 0.02
25 63 0.98
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (25 bp):
AAATGTCATCATGATTTTGAAAATG
Found at i:95928425 original size:65 final size:65
Alignment explanation
Indices: 95928351--95928483 Score: 257
Period size: 65 Copynumber: 2.0 Consensus size: 65
95928341 GTTTAAGGAT
*
95928351 CATTTGATGTTGAAATTCATGTTTTCTGGGCTGTTTTAGAGTGGTTTCGTGACCACATGGGTGGC
1 CATTTGATGTCGAAATTCATGTTTTCTGGGCTGTTTTAGAGTGGTTTCGTGACCACATGGGTGGC
95928416 CATTTGATGTCGAAATTCATGTTTTCTGGGCTGTTTTAGAGTGGTTTCGTGACCACATGGGTGGC
1 CATTTGATGTCGAAATTCATGTTTTCTGGGCTGTTTTAGAGTGGTTTCGTGACCACATGGGTGGC
95928481 CAT
1 CAT
95928484 ACAGGCGTGT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.17, C:0.15, G:0.29, T:0.39
Consensus pattern (65 bp):
CATTTGATGTCGAAATTCATGTTTTCTGGGCTGTTTTAGAGTGGTTTCGTGACCACATGGGTGGC
Found at i:95935173 original size:40 final size:39
Alignment explanation
Indices: 95935008--95935191 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
95934998 AAATTGAATG
* * *
95935008 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
95935048 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
95935088 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
95935128 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
95935167 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
95935192 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:95935216 original size:80 final size:81
Alignment explanation
Indices: 95935048--95935236 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
95935038 GCTGGAAATT
* * * *
95935048 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
95935113 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
95935129 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
95935192 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
95935208 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
95935237 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:95943269 original size:40 final size:39
Alignment explanation
Indices: 95943104--95943287 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
95943094 AAATTGAATG
* * *
95943104 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
95943144 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
95943184 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
95943224 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
95943263 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
95943288 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:95943312 original size:80 final size:81
Alignment explanation
Indices: 95943144--95943332 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
95943134 GCTGGAAATT
* * * *
95943144 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
95943209 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
95943225 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
95943288 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
95943304 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
95943333 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:95945281 original size:21 final size:21
Alignment explanation
Indices: 95945257--95945302 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
95945247 CCACATGAGT
*
95945257 GTGTGAGGACTTCACAAGGGC
1 GTGTGAGGACTCCACAAGGGC
* * *
95945278 GTGTGTGGCCTCCACATGGGC
1 GTGTGAGGACTCCACAAGGGC
95945299 GTGT
1 GTGT
95945303 AGACCCCCAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.15, C:0.22, G:0.39, T:0.24
Consensus pattern (21 bp):
GTGTGAGGACTCCACAAGGGC
Found at i:95947477 original size:45 final size:44
Alignment explanation
Indices: 95947426--95947571 Score: 177
Period size: 46 Copynumber: 3.2 Consensus size: 44
95947416 TCTTTTGAGC
* * *
95947426 AGGTTCAGCCTTAACAAGTGACCAAACACTATTATCGATTCGTGT
1 AGGTTCAACCTTAA-AGGTGACCAAGCACTATTATCGATTCGTGT
*
95947471 AGGTTCAACCTTAATAGGTGACCAAGCACTATTACTCGATTTGTGT
1 AGGTTCAACCTTAA-AGGTGACCAAGCACTATTA-TCGATTCGTGT
* * *
95947517 AGGTTCAACCCTAAAGGGTGACCAGGCACTATTGTCTGATTCGTGT
1 AGGTTCAACCTTAAA-GGTGACCAAGCACTATTATC-GATTCGTGT
95947563 AGGTT-AACC
1 AGGTTCAACC
95947572 CTAATGGGTA
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
45 37 0.42
46 52 0.58
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
AGGTTCAACCTTAAAGGTGACCAAGCACTATTATCGATTCGTGT
Found at i:95947537 original size:46 final size:45
Alignment explanation
Indices: 95947443--95947585 Score: 182
Period size: 46 Copynumber: 3.2 Consensus size: 45
95947433 GCCTTAACAA
* *
95947443 GTGACCAAACACTATTATCGATTCGTGTAGGTTCAACCTTAATA-G
1 GTGACCAAGCACTATTATCGATTCGTGTAGGTTCAACCCTAA-AGG
*
95947488 GTGACCAAGCACTATTACTCGATTTGTGTAGGTTCAACCCTAAAGG
1 GTGACCAAGCACTATTA-TCGATTCGTGTAGGTTCAACCCTAAAGG
* * *
95947534 GTGACCAGGCACTATTGTCTGATTCGTGTAGGTT-AACCCTAATGG
1 GTGACCAAGCACTATTATC-GATTCGTGTAGGTTCAACCCTAAAGG
*
95947579 GTAACCA
1 GTGACCA
95947586 GGAACTATGA
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
45 35 0.40
46 52 0.60
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (45 bp):
GTGACCAAGCACTATTATCGATTCGTGTAGGTTCAACCCTAAAGG
Found at i:95947587 original size:45 final size:45
Alignment explanation
Indices: 95947443--95947620 Score: 171
Period size: 46 Copynumber: 3.9 Consensus size: 45
95947433 GCCTTAACAA
** * *
95947443 GTGACCAAACACTATTATC-GATTCGTGTAGGTTCAACCTTAATAG
1 GTGACCAGGCACTATT-TCTGATTCGTGTAGGTTCAACCCTAATGG
* * * *
95947488 GTGACCAAGCACTATTACTCGATTTGTGTAGGTTCAACCCTAAAGG
1 GTGACCAGGCACTATTTCT-GATTCGTGTAGGTTCAACCCTAATGG
95947534 GTGACCAGGCACTATTGTCTGATTCGTGTAGGTT-AACCCTAATGG
1 GTGACCAGGCACTATT-TCTGATTCGTGTAGGTTCAACCCTAATGG
* * * * *
95947579 GTAACCAGGAACTATGATTCATTATTCATGTAGGTGCAACCC
1 GTGACCAGGCACTAT--TTC-TGATTCGTGTAGGTTCAACCC
95947621 AAAGATGTAA
Statistics
Matches: 111, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
44 1 0.01
45 38 0.34
46 52 0.47
47 15 0.14
48 5 0.05
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (45 bp):
GTGACCAGGCACTATTTCTGATTCGTGTAGGTTCAACCCTAATGG
Found at i:95950035 original size:27 final size:27
Alignment explanation
Indices: 95949994--95950047 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
95949984 TGTCATGTGA
* *
95949994 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
95950021 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
95950048 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:95950373 original size:49 final size:49
Alignment explanation
Indices: 95950301--95950526 Score: 226
Period size: 49 Copynumber: 4.8 Consensus size: 49
95950291 TGAGGTCACG
* *
95950301 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTTGCA
* * *
95950350 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATAACTTCGAT-CA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TTGGTTGCA
*
95950399 CGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAG---A-----TG--
1 --TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTTGCA
* * * *
95950440 -GT-TAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTTGCA
* *
95950487 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA
95950527 CATTGTCTAC
Statistics
Matches: 146, Mismatches: 15, Indels: 32
0.76 0.08 0.17
Matches are distributed among these distances:
37 30 0.21
38 2 0.01
40 1 0.01
42 1 0.01
45 1 0.01
48 3 0.02
49 70 0.48
50 4 0.03
51 34 0.23
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTTGCA
Found at i:95950378 original size:26 final size:26
Alignment explanation
Indices: 95950349--95950432 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
95950339 AATTGGTTGC
95950349 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
* * * *
95950375 ATGTGTACCTGA-TAACTTC--GATCAC-
1 ATGTGTA-GT-ACTAAGTGCAGGCT-ACT
*
95950400 GTGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
95950426 ATGTGTA
1 ATGTGTA
95950433 TCAGATGGTT
Statistics
Matches: 41, Mismatches: 10, Indels: 14
0.63 0.15 0.22
Matches are distributed among these distances:
23 1 0.02
24 6 0.15
25 10 0.24
26 17 0.41
27 6 0.15
28 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (26 bp):
ATGTGTAGTACTAAGTGCAGGCTACT
Found at i:95950463 original size:88 final size:86
Alignment explanation
Indices: 95950354--95950524 Score: 243
Period size: 86 Copynumber: 2.0 Consensus size: 86
95950344 GTTGCATGTG
* * *
95950354 TAGTACTAAGTGCAGGCTACTATGTGTACCTGATAACTTCGATCACGTGTGTAGTACTAAGTGCA
1 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GATCACATGTGTAGTACTAAGTGCA
* * *
95950419 GGCTACTATGTGTATCAGATGGT
64 AGCTACTATGCGTACCAGATGGT
* * *
95950442 TAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCATGTGTAGTACTAAGTGCAAG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGATCACATGTGTAGTACTAAGTGCAAG
95950507 CTACTATGCGTACCAGAT
66 CTACTATGCGTACCAGAT
95950525 AACATTGTCT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
86 39 0.53
87 2 0.03
88 33 0.45
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (86 bp):
TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGATCACATGTGTAGTACTAAGTGCAAG
CTACTATGCGTACCAGATGGT
Found at i:95959208 original size:116 final size:117
Alignment explanation
Indices: 95959058--95959291 Score: 425
Period size: 116 Copynumber: 2.0 Consensus size: 117
95959048 AGAATAAGAG
95959058 TAAGAATTCCTAACAAGTTTTTGTACAATAGGTTCTGGATTTTAAGGTTTGAATGCCTTCGATTT
1 TAAGAATTCCTAACAAGTTTTTGTACAATAGGTTCTGGATTTTAAGGTTTGAATGCCTTCGATTT
95959123 AACCAATATATGGTTGTCACGCTTAATTGCAAGGACAATAGAGGTTCTGACA
66 AACCAATATATGGTTGTCACGCTTAATTGCAAGGACAATAGAGGTTCTGACA
* * *
95959175 TAAGAATTCTTAA-AAGTTTTTGTACAATGGGTTCTGGATTTTAAGGTTTGAATGCCTTCGGTTT
1 TAAGAATTCCTAACAAGTTTTTGTACAATAGGTTCTGGATTTTAAGGTTTGAATGCCTTCGATTT
*
95959239 AACCAATATATGGTTGTCACGCTTAGTTGCAAGGACAATAGAGGTTCTGACA
66 AACCAATATATGGTTGTCACGCTTAATTGCAAGGACAATAGAGGTTCTGACA
95959291 T
1 T
95959292 TTGGAAAAGC
Statistics
Matches: 113, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
116 101 0.89
117 12 0.11
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (117 bp):
TAAGAATTCCTAACAAGTTTTTGTACAATAGGTTCTGGATTTTAAGGTTTGAATGCCTTCGATTT
AACCAATATATGGTTGTCACGCTTAATTGCAAGGACAATAGAGGTTCTGACA
Found at i:95959988 original size:68 final size:68
Alignment explanation
Indices: 95959916--95960043 Score: 168
Period size: 68 Copynumber: 1.9 Consensus size: 68
95959906 TGATGTCCAC
* *
95959916 CAAGAGAGTAAACATGACATTATAT-AGTGTAAGACCATAGCTAGCCTATGGAAACATATGAAAT
1 CAAGAGAGTAAACATGACATCATATCA-TGTAAGACCATAGCTAGCCTATGAAAACATATGAAAT
95959980 TTGT
65 TTGT
* * * * * *
95959984 CAAGATAGTAAATATGGCATCATATCATGTAAGACCATAGTTGGGCTATGAAAACATATG
1 CAAGAGAGTAAACATGACATCATATCATGTAAGACCATAGCTAGCCTATGAAAACATATG
95960044 GAGTCTACCA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
68 50 0.98
69 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.27
Consensus pattern (68 bp):
CAAGAGAGTAAACATGACATCATATCATGTAAGACCATAGCTAGCCTATGAAAACATATGAAATT
TGT
Found at i:95973821 original size:40 final size:40
Alignment explanation
Indices: 95973733--95973822 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 40
95973723 ATGCTGGAAA
*
95973733 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGG
* * *
95973773 CTACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GCGG
95973813 TTATATCCGG
1 TTATATCCGG
95973823 TTGTATTCCG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
39 4 0.10
40 38 0.90
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGG
Found at i:95981415 original size:30 final size:30
Alignment explanation
Indices: 95981327--95981457 Score: 162
Period size: 29 Copynumber: 4.5 Consensus size: 30
95981317 GACAAGATTG
* * * * *
95981327 GCACTAAGTGTGCGGGTTTAAAAATTGTACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
*
95981358 GCACTAAGTGTGCGAAC--AAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
95981385 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
95981415 GCACTAAGTGTGCGAGCTG-AAATAATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
95981444 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
95981458 GATTCACTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
27 20 0.22
28 4 0.04
29 27 0.30
30 25 0.28
31 14 0.16
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:95981421 original size:57 final size:60
Alignment explanation
Indices: 95981327--95981457 Score: 178
Period size: 57 Copynumber: 2.2 Consensus size: 60
95981317 GACAAGATTG
* * *
95981327 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAAC-AAAAT-ATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTAAAATAATATA
* * * *
95981385 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAATAATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTAAAATAATATA
95981444 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
95981458 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 26 0.41
58 19 0.30
59 19 0.30
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTAAAATAATATA
Found at i:95989439 original size:59 final size:58
Alignment explanation
Indices: 95989342--95989473 Score: 237
Period size: 59 Copynumber: 2.3 Consensus size: 58
95989332 AAAATTGTAC
*
95989342 AGCACTAAGTGTGCGAACTGAAAATATATATCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
95989400 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
95989459 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
95989474 GATTCACTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 23 0.32
59 48 0.68
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.25
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:95989465 original size:88 final size:89
Alignment explanation
Indices: 95989312--95989473 Score: 254
Period size: 88 Copynumber: 1.8 Consensus size: 89
95989302 GACAAGATTG
* * * *
95989312 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATATCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
95989377 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
95989401 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
95989465 AAGTGTGCG
66 AAGTGTGCG
95989474 GATTCACTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
88 51 0.77
89 15 0.23
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:95989485 original size:29 final size:29
Alignment explanation
Indices: 95989342--95989473 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
95989332 AAAATTGTAC
*
95989342 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
*
95989371 ATCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
95989400 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
95989430 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
95989459 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
95989474 GATTCACTAT
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
29 70 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.25
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:95994207 original size:15 final size:16
Alignment explanation
Indices: 95994185--95994242 Score: 73
Period size: 15 Copynumber: 3.6 Consensus size: 16
95994175 TGTCACGAAC
95994185 ACCCCCATGTAGGTG-
1 ACCCCCATGTAGGTGA
* **
95994200 AGCCCCATGTATATGAA
1 ACCCCCATGTAGGTG-A
95994217 ACCCCCATGTAGGTGA
1 ACCCCCATGTAGGTGA
95994233 ACCCCCATGT
1 ACCCCCATGT
95994243 GAACCCCTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
15 12 0.34
16 11 0.31
17 12 0.34
ACGTcount: A:0.26, C:0.33, G:0.21, T:0.21
Consensus pattern (16 bp):
ACCCCCATGTAGGTGA
Found at i:95994321 original size:14 final size:14
Alignment explanation
Indices: 95994284--95994328 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
95994274 AACCCTCTTG
95994284 TATGTGAACCCCTA
1 TATGTGAACCCCTA
**
95994298 TATGCAAACCCCTA
1 TATGTGAACCCCTA
*
95994312 TATGTGAACCCCCA
1 TATGTGAACCCCTA
95994326 TAT
1 TAT
95994329 TCGAAGCCCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.27
Consensus pattern (14 bp):
TATGTGAACCCCTA
Found at i:95994392 original size:45 final size:44
Alignment explanation
Indices: 95994273--95994396 Score: 135
Period size: 45 Copynumber: 2.8 Consensus size: 44
95994263 CCTTACATAC
* * *
95994273 GAACCCTCTTGTATGTGAACCCC-TATATGCAAACCCCTATATGT
1 GAACCC-CTTGTATTTGAACCCCTTACATGCAAACCCCAATATGT
** * * * *
95994317 GAACCCC-CATATTCGAAGCCCTTACATGCAAACTCCAATCTGT
1 GAACCCCTTGTATTTGAACCCCTTACATGCAAACCCCAATATGT
95994360 GAACACCCTTGTATTTGAACCCCTTACATGCAAACCC
1 GAAC-CCCTTGTATTTGAACCCCTTACATGCAAACCC
95994397 ATTGCACGCG
Statistics
Matches: 63, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
42 9 0.14
43 22 0.35
44 9 0.14
45 23 0.37
ACGTcount: A:0.29, C:0.33, G:0.12, T:0.26
Consensus pattern (44 bp):
GAACCCCTTGTATTTGAACCCCTTACATGCAAACCCCAATATGT
Found at i:95994553 original size:14 final size:15
Alignment explanation
Indices: 95994524--95994560 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
95994514 GGGTTTAGTA
95994524 TGCGAACCCAATATG
1 TGCGAACCCAATATG
95994539 TGCGAACCC-ATATG
1 TGCGAACCCAATATG
95994553 TGCGAACC
1 TGCGAACC
95994561 TTGTATTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (15 bp):
TGCGAACCCAATATG
Found at i:95996568 original size:30 final size:30
Alignment explanation
Indices: 95996534--95996605 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
95996524 ACAAAATTCT
**
95996534 ATGACTGTTGATTGTGTCCAATAGAAGCCG
1 ATGACTGCCGATTGTGTCCAATAGAAGCCG
* *
95996564 ATGACAGCCGATTGTGTCGAATAGAAGCCG
1 ATGACTGCCGATTGTGTCCAATAGAAGCCG
95996594 ATGACTGCCGAT
1 ATGACTGCCGAT
95996606 GTTGGCAACA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (30 bp):
ATGACTGCCGATTGTGTCCAATAGAAGCCG
Found at i:95999471 original size:80 final size:81
Alignment explanation
Indices: 95999311--95999475 Score: 287
Period size: 80 Copynumber: 2.0 Consensus size: 81
95999301 TAGACTAAGG
*
95999311 ACATGTTTAGGTTAGTCTACTAATACAGTTTGTCTTTTCGTACTACGATTCAACCATGTAATACT
1 ACATGTTTAGGTTAGTCTACTAATACAGGTTGTCTTTTCGTACTACGATTCAACCATGTAATACT
95999376 GCTTGGTATCAGTTAA
66 GCTTGGTATCAGTTAA
95999392 ACATGTTTAGGTTAGTCTACTAATACAGGTTGTC-TTTCGTACTACGATTCAACCATGTAATACT
1 ACATGTTTAGGTTAGTCTACTAATACAGGTTGTCTTTTCGTACTACGATTCAACCATGTAATACT
* * *
95999456 TCTTTGTATTAGTTAA
66 GCTTGGTATCAGTTAA
95999472 ACAT
1 ACAT
95999476 TTAAACAACC
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
80 47 0.59
81 33 0.41
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (81 bp):
ACATGTTTAGGTTAGTCTACTAATACAGGTTGTCTTTTCGTACTACGATTCAACCATGTAATACT
GCTTGGTATCAGTTAA
Found at i:96001466 original size:16 final size:17
Alignment explanation
Indices: 96001447--96001480 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
96001437 ATATCTCTTG
*
96001447 TTTAG-AATAACTGTGT
1 TTTAGTAATAACTATGT
96001463 TTTAGTAATAACTATGT
1 TTTAGTAATAACTATGT
96001480 T
1 T
96001481 AAGAGCAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (17 bp):
TTTAGTAATAACTATGT
Found at i:96016476 original size:40 final size:40
Alignment explanation
Indices: 96016402--96016492 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 40
96016392 CCATGTTCGA
96016402 CACTAAGTGTGCGATTCAAAATAGCTTCGACTATAAAT-A-G
1 CACTAAGTGTGCGATTCAAAATAGCTTCGACTAT--ATGAGG
** * *
96016442 CACTAAGTGTGCGAATT-GGAATAGCTTTGGCTATATGAGG
1 CACTAAGTGTGCG-ATTCAAAATAGCTTCGACTATATGAGG
96016482 CACTAAGTGTG
1 CACTAAGTGTG
96016493 AGATACCGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
38 2 0.05
39 1 0.02
40 38 0.86
41 3 0.07
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (40 bp):
CACTAAGTGTGCGATTCAAAATAGCTTCGACTATATGAGG
Found at i:96028223 original size:19 final size:19
Alignment explanation
Indices: 96028199--96028239 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
96028189 CTATGGCATC
96028199 AATATTAATCATTTGGCTT
1 AATATTAATCATTTGGCTT
96028218 AATATTAATCATTTGGCTT
1 AATATTAATCATTTGGCTT
96028237 AAT
1 AAT
96028240 GGATACATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (19 bp):
AATATTAATCATTTGGCTT
Found at i:96033300 original size:40 final size:40
Alignment explanation
Indices: 96033255--96033421 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
96033245 CGGAATATAA
96033255 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
96033295 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
96033335 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
96033375 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
96033414 CCGGATAT
1 CCGGATAT
96033422 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:96041311 original size:40 final size:40
Alignment explanation
Indices: 96041266--96041433 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
96041256 CGGAATATAA
96041266 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
96041306 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
96041346 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
96041386 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
96041426 CCGGATAT
1 CCGGATAT
96041434 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:96043182 original size:11 final size:11
Alignment explanation
Indices: 96043162--96043199 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
96043152 ATATATGTTA
*
96043162 TCCGAGAAAGT
1 TCCGACAAAGT
*
96043173 ACCGACAAAGT
1 TCCGACAAAGT
96043184 TCCGACAAAGT
1 TCCGACAAAGT
96043195 TCCGA
1 TCCGA
96043200 TGTCTGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (11 bp):
TCCGACAAAGT
Found at i:96045150 original size:28 final size:28
Alignment explanation
Indices: 96045118--96045247 Score: 208
Period size: 28 Copynumber: 4.5 Consensus size: 28
96045108 ATAGTGAATC
96045118 CGCACACTTAGTGCTATAATTTTCAGCT
1 CGCACACTTAGTGCTATAATTTTCAGCT
96045146 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGC--TATAATTTTCAGCT
96045176 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATA-ATTTTCAGCT
*
96045205 CGCACACTTAGTGCTAT-ATATTTCAGTT
1 CGCACACTTAGTGCTATAAT-TTTCAGCT
96045233 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
96045248 GTACAATTTT
Statistics
Matches: 97, Mismatches: 1, Indels: 8
0.92 0.01 0.08
Matches are distributed among these distances:
27 2 0.02
28 40 0.41
29 27 0.28
30 28 0.29
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAATTTTCAGCT
Found at i:96045268 original size:59 final size:59
Alignment explanation
Indices: 96045118--96045277 Score: 200
Period size: 59 Copynumber: 2.7 Consensus size: 59
96045108 ATAGTGAATC
* * *
96045118 CGCACACTTAGTGCTAT-AATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTAAACCCGCACACTTAGTGCTATATAATTTTCAGCT
* * * * *
96045176 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-A-TTTCAGTT
1 CGCACACTTAGTGCTATAAATTTTAAACCCGCACACTTAGTGCTATATAATTTTCAGCT
*
96045233 CGCACACTTAGTGCTGTACAATTTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-AA-TTTTAAACCCGCACACTTAGTGC
96045278 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
57 24 0.26
58 19 0.21
59 49 0.53
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (59 bp):
CGCACACTTAGTGCTATAAATTTTAAACCCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:96053125 original size:27 final size:29
Alignment explanation
Indices: 96053095--96053209 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 29
96053085 ACGCAAGAGC
*
96053095 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
96053122 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
96053151 ATATAATTTTCAGCTCGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
* ** *
96053181 ATATATTTTCAGTTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
96053210 GTACAATTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 5 0.06
28 3 0.04
29 43 0.54
30 29 0.36
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.37
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:96053162 original size:30 final size:29
Alignment explanation
Indices: 96053107--96053209 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
96053097 ATAGTGAATC
96053107 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
96053136 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
96053166 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
96053195 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
96053210 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:96053199 original size:59 final size:60
Alignment explanation
Indices: 96053106--96053239 Score: 207
Period size: 59 Copynumber: 2.2 Consensus size: 60
96053096 TATAGTGAAT
* * *
96053106 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * *
96053165 TCGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
96053225 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
96053240 CAATCTTGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 47 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:96056190 original size:46 final size:48
Alignment explanation
Indices: 96056039--96056268 Score: 184
Period size: 46 Copynumber: 4.8 Consensus size: 48
96056029 TCCATCAAGT
** * **
96056039 CGATGCCATGTCCCAAACATGGTCTTACACTAACTATCA-AAATCGAGGC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCACATCTCGAGGC
* * * *
96056088 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGCATCTCTG-CGT
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCACATCTC-GAGGC
*
96056138 CGATGCATGTCCCAAACATCTCTTACACTGGCT-T-ACATCTCGAGGC
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTCTCACATCTCGAGGC
* * * * *
96056184 CGATGCATGTCCCAAACATGTCTTACTCTAGCTCT--CGTCTCAATGC
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTCTCACATCTCGAGGC
* * * *
96056230 CAATGCCATGTCCTAGATATGGTCTTACACTGGCTCTCA
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCA
96056269 TAATGTGGCT
Statistics
Matches: 147, Mismatches: 26, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 49 0.33
47 13 0.09
48 27 0.18
49 47 0.32
50 9 0.06
51 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.27
Consensus pattern (48 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCTCTCACATCTCGAGGC
Found at i:96056220 original size:94 final size:99
Alignment explanation
Indices: 96056037--96056220 Score: 245
Period size: 94 Copynumber: 1.9 Consensus size: 99
96056027 CTTCCATCAA
*
96056037 GTCGATGCCATGTCCCAAACATGGTCTTACACTAACTATCAAAATCGAGGCCGATGCCATGTCCC
1 GTCGATGCCATGTCCCAAACATGCTCTTACACTAACTATCAAAATCGAGGCCGATGCCATGTCCC
* *
96056102 AGACATGGTCTTACACTGGCTCTCGCATCTCTGC
66 AAACATGGTCTTACACTAGCTCTCGCATCTCTGC
** **
96056136 GTCGATG-CATGTCCCAAACAT-CTCTTACACTGGCT-T-ACATCTCGAGGCCGATG-CATGTCC
1 GTCGATGCCATGTCCCAAACATGCTCTTACACTAACTATCA-AAATCGAGGCCGATGCCATGTCC
*
96056196 CAAACAT-GTCTTACTCTAGCTCTCG
65 CAAACATGGTCTTACACTAGCTCTCG
96056221 TCTCAATGCC
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
94 16 0.21
95 14 0.18
96 14 0.18
97 11 0.14
98 14 0.18
99 7 0.09
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (99 bp):
GTCGATGCCATGTCCCAAACATGCTCTTACACTAACTATCAAAATCGAGGCCGATGCCATGTCCC
AAACATGGTCTTACACTAGCTCTCGCATCTCTGC
Found at i:96057823 original size:58 final size:56
Alignment explanation
Indices: 96057754--96057863 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 56
96057744 TCACATATAT
* * *
96057754 AGGGTTTGCACATATGGGTTCGTACCTTGGGTTTCGCACACGTA-GGGTTTGCACATAC
1 AGGGTTCGCACATATGGGTTCGTACCTAGGGCTT-GCACA--TATGGGTTTGCACATAC
96057812 AGGGTTCGCACATATGGGTTCGTACCTAGGGCTTGCACATATGGGTTTGCAC
1 AGGGTTCGCACATATGGGTTCGTACCTAGGGCTTGCACATATGGGTTTGCAC
96057864 CTAGGGTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
55 2 0.04
56 10 0.21
57 5 0.10
58 31 0.65
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (56 bp):
AGGGTTCGCACATATGGGTTCGTACCTAGGGCTTGCACATATGGGTTTGCACATAC
Found at i:96057857 original size:85 final size:85
Alignment explanation
Indices: 96057753--96057924 Score: 229
Period size: 85 Copynumber: 2.0 Consensus size: 85
96057743 TTCACATATA
* * * * * *
96057753 TAGGGTTTGCACATATGGGTTCGTACCTTGGGTTTCGCACACGTAGGGTTTGCACATACAGGGTT
1 TAGGGCTTGCACATATGGGTTCGCACCTAGGGTTTCGAACACGTACGGTTCGCACATACAGGGTT
96057818 CGCACATATGGG-TTCGTACC
66 CGCACATATGGGATT-GTACC
* * * *
96057838 TAGGGCTTGCACATATGGGTTTGCACCTAGGGTTTTGAACATGTACGGTTCGCACATATAGGGTT
1 TAGGGCTTGCACATATGGGTTCGCACCTAGGGTTTCGAACACGTACGGTTCGCACATACAGGGTT
*
96057903 TGCACATATGGGATTGTACC
66 CGCACATATGGGATTGTACC
96057923 TA
1 TA
96057925 CGACTCACAC
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
85 73 0.97
86 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.31
Consensus pattern (85 bp):
TAGGGCTTGCACATATGGGTTCGCACCTAGGGTTTCGAACACGTACGGTTCGCACATACAGGGTT
CGCACATATGGGATTGTACC
Found at i:96057911 original size:15 final size:15
Alignment explanation
Indices: 96057750--96057911 Score: 99
Period size: 15 Copynumber: 11.3 Consensus size: 15
96057740 GGTTTCACAT
96057750 ATATAGGGTTTGCAC
1 ATATAGGGTTTGCAC
* *
96057765 ATAT-GGGTTCGTAC
1 ATATAGGGTTTGCAC
*
96057779 CT-T-GGGTTTCGCAC
1 ATATAGGGTTT-GCAC
**
96057793 ACGTAGGGTTTGCAC
1 ATATAGGGTTTGCAC
* *
96057808 ATACAGGGTTCGCAC
1 ATATAGGGTTTGCAC
* *
96057823 ATAT-GGGTTCGTAC
1 ATATAGGGTTTGCAC
* *
96057837 --CTAGGGCTTGCAC
1 ATATAGGGTTTGCAC
96057850 ATAT-GGGTTTGCAC
1 ATATAGGGTTTGCAC
* *
96057864 --CTAGGGTTTTGAAC
1 ATATAGGG-TTTGCAC
* * *
96057878 ATGTACGGTTCGCAC
1 ATATAGGGTTTGCAC
96057893 ATATAGGGTTTGCAC
1 ATATAGGGTTTGCAC
96057908 ATAT
1 ATAT
96057912 GGGATTGTAC
Statistics
Matches: 109, Mismatches: 28, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
12 2 0.02
13 16 0.15
14 36 0.33
15 45 0.41
16 10 0.09
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (15 bp):
ATATAGGGTTTGCAC
Found at i:96057936 original size:85 final size:85
Alignment explanation
Indices: 96057762--96057943 Score: 215
Period size: 85 Copynumber: 2.2 Consensus size: 85
96057752 ATAGGGTTTG
* * * * *
96057762 CACATATGGGTTCGTACCTTGGGTTTCGCACACGTAGGGTTTGCACATACAGGGTTCGCACATAT
1 CACATATGGGTTCGCACCTAGGGTTTCGAACACGTACGGTTCGCACATACAGGGTTCGCACATAT
* * **
96057827 GGGTTCGTACCTAGGGCTTG
66 GGGTTCGTACCTACGACTCA
* * * * *
96057847 CACATATGGGTTTGCACCTAGGGTTTTGAACATGTACGGTTCGCACATATAGGGTTTGCACATAT
1 CACATATGGGTTCGCACCTAGGGTTTCGAACACGTACGGTTCGCACATACAGGGTTCGCACATAT
96057912 GGGATT-GTACCTACGACTCA
66 GGG-TTCGTACCTACGACTCA
96057932 CACATA-GGGTTC
1 CACATATGGGTTC
96057944 CACATAGTAA
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
84 5 0.06
85 74 0.91
86 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (85 bp):
CACATATGGGTTCGCACCTAGGGTTTCGAACACGTACGGTTCGCACATACAGGGTTCGCACATAT
GGGTTCGTACCTACGACTCA
Found at i:96058125 original size:18 final size:17
Alignment explanation
Indices: 96058091--96058138 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
96058081 GGTTCCCATG
*
96058091 ATATATGGGGCTTGCATA
1 ATATATAGGG-TTGCATA
*
96058109 ATATATAGGGTTAGCATG
1 ATATATAGGGTT-GCATA
*
96058127 ATAAATAGGGTT
1 ATATATAGGGTT
96058139 CACATACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 2 0.08
18 24 0.92
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (17 bp):
ATATATAGGGTTGCATA
Found at i:96058288 original size:2 final size:2
Alignment explanation
Indices: 96058281--96058323 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
96058271 TGGGGTTCGC
96058281 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96058323 A
1 A
96058324 AGCTACAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:96061399 original size:11 final size:11
Alignment explanation
Indices: 96061385--96061436 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
96061375 TCTTTCAATA
96061385 TTCTCTCAAAT
1 TTCTCTCAAAT
96061396 TTCTCTCAAA-
1 TTCTCTCAAAT
96061406 -TCTCTCAAAT
1 TTCTCTCAAAT
*
96061416 TTCTCTTAAAT
1 TTCTCTCAAAT
*
96061427 TCCTCTCAAA
1 TTCTCTCAAA
96061437 ACTCTCGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:96061411 original size:20 final size:21
Alignment explanation
Indices: 96061379--96061436 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 21
96061369 CTTCAATCTT
96061379 TCAATATTCTCTCAAATTTCTC
1 TCAA-ATTCTCTCAAATTTCTC
96061401 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTTCTC
*
96061421 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
96061437 ACTCTCGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 19 0.58
21 2 0.06
22 12 0.36
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTTCTC
Found at i:96061491 original size:16 final size:15
Alignment explanation
Indices: 96061462--96061492 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
96061452 TTCAAAAAGC
*
96061462 TCTAATTTTATTTTT
1 TCTAAATTTATTTTT
96061477 TCTAAATTTATTTTT
1 TCTAAATTTATTTTT
96061492 T
1 T
96061493 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTAAATTTATTTTT
Found at i:96062605 original size:7 final size:7
Alignment explanation
Indices: 96062593--96062640 Score: 96
Period size: 7 Copynumber: 6.9 Consensus size: 7
96062583 TAGTGGATTC
96062593 GTATTTA
1 GTATTTA
96062600 GTATTTA
1 GTATTTA
96062607 GTATTTA
1 GTATTTA
96062614 GTATTTA
1 GTATTTA
96062621 GTATTTA
1 GTATTTA
96062628 GTATTTA
1 GTATTTA
96062635 GTATTT
1 GTATTT
96062641 TTTATTTAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:96063888 original size:116 final size:116
Alignment explanation
Indices: 96063683--96064416 Score: 1315
Period size: 116 Copynumber: 6.3 Consensus size: 116
96063673 TATTTGTACA
* *
96063683 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAAGGTTATTTTAAATAAAGTAA
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGAT-AAAAGGTTGTTTTAAATAAAGTAA
96063748 TTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
65 TTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
96063800 AACATTTTGAATATTTTTATATTAGTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
96063865 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
96063916 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
96063981 TGTAATTTAGTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGT
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
96064032 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
96064097 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGT
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
96064148 AACATTTTGAGTATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
96064213 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* *
96064264 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATATAAAAGGTTGTTTTAAATAAAGTA
1 AACATTTTGAATATTTTTATATTATTTCATGT-A-ATTAGATAAAAGGTTGTTTTAAATAAAGTA
* * *
96064329 ATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
64 ATTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
96064382 AATATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
96064417 AAAATATAAA
Statistics
Matches: 596, Mismatches: 19, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
116 447 0.75
117 40 0.07
118 109 0.18
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:96067852 original size:126 final size:126
Alignment explanation
Indices: 96067434--96067854 Score: 592
Period size: 126 Copynumber: 3.3 Consensus size: 126
96067424 GTCTAAGTTA
* * * * * * *
96067434 TTTCAGAAACCACTGTAGCAAAAGAGTGTCCATGTGGGAGATTCTTTCAATACTGTTGCTGAAAA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAA
* ** *
96067499 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGATACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * * * *
96067560 TTCCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCCGAAAA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
96067625 TGTATCATGCTTGAAGCG-TTTTTACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTTA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * *
96067686 TTTCAGAGACTACTGTAGCAAAAGAGAGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAA
*
96067751 TGCATCCTGCTTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * *
96067812 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCAAGTAGAAGCTT
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGAAGCTT
96067855 TTTTAGATTA
Statistics
Matches: 261, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
125 5 0.02
126 250 0.96
127 6 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (126 bp):
TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:96068104 original size:96 final size:99
Alignment explanation
Indices: 96067897--96068134 Score: 288
Period size: 96 Copynumber: 2.4 Consensus size: 99
96067887 CCTAAACGCC
* * * * *
96067897 AAACCCTAATTTATTTGATTTTTTTCTTAAATACCCTAAAACCCTAAATCCCTAATCTAATTTTT
1 AAACCCTAATTTATTTGATTTTTTCCTTAAAAACCATAAAACACTAAATCCATAATCTAA--TTT
* ** *
96067962 TTTTAAAATTTATAATTAATTTACTCAAGTAACCCT
64 TTTTAAAATTTATAATTAATTTAATCAACAAACACT
*
96067998 AAACCTTAATTTATTTGATTTTTTCCTTAAAAACCAT-AAACACTAAA-CCATAATCTAA-TTTT
1 AAACCCTAATTTATTTGATTTTTTCCTTAAAAACCATAAAACACTAAATCCATAATCTAATTTTT
*
96068060 TTAAAA-TTAGTAATTAATTTAATTAACAAACACT
66 TTAAAATTTA-TAATTAATTTAATCAACAAACACT
* *
96068094 AAACCCTAATTTATTTAATTTTTTTCCTTAAAATCC-TAAAA
1 AAACCCTAATTTATTTGA-TTTTTTCCTTAAAAACCATAAAA
96068135 TTTAAAAACC
Statistics
Matches: 120, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
95 3 0.03
96 46 0.38
97 19 0.16
99 10 0.08
100 9 0.08
101 33 0.28
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.42
Consensus pattern (99 bp):
AAACCCTAATTTATTTGATTTTTTCCTTAAAAACCATAAAACACTAAATCCATAATCTAATTTTT
TTAAAATTTATAATTAATTTAATCAACAAACACT
Found at i:96068494 original size:22 final size:21
Alignment explanation
Indices: 96068450--96068497 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 21
96068440 TTTTAAAAAT
96068450 ATTTTAAATTATTATGTTTAA
1 ATTTTAAATTATTATGTTTAA
96068471 ATTTTAAATTAAATTAT-TTTAA
1 ATTTTAAATT--ATTATGTTTAA
96068493 ATTTT
1 ATTTT
96068498 TTTTATGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.40
22 10 0.40
23 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTAAATTATTATGTTTAA
Found at i:96070670 original size:23 final size:24
Alignment explanation
Indices: 96070644--96070689 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
96070634 ATTAAAAACC
*
96070644 ATAAATATT-TACAAAAATAATTT
1 ATAAAAATTATACAAAAATAATTT
* *
96070667 ATAAAAATTATTCAAAATTAATT
1 ATAAAAATTATACAAAAATAATT
96070690 AAATACCATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
ATAAAAATTATACAAAAATAATTT
Found at i:96072841 original size:40 final size:40
Alignment explanation
Indices: 96072785--96072900 Score: 110
Period size: 40 Copynumber: 2.9 Consensus size: 40
96072775 GGATATAACT
* * *
96072785 ACTCGCTCAAAAGCCTTTGAGACTTAACCCGGTTATAGTA
1 ACTCGCACAAATGCCTTTGAGACTTAGCCCGGTTATAGTA
* * ** *
96072825 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GAAATTAGTC
1 ACTCGCACAAATGCCTTTGAGACTTAGCCCGGTTA-TAGTA
* *
96072865 ACTAGCACAAATGCC-TTCAGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTTGA-GACTTAGCCCGGTTAT
96072901 CATCCGAATA
Statistics
Matches: 59, Mismatches: 14, Indels: 6
0.75 0.18 0.08
Matches are distributed among these distances:
39 3 0.05
40 54 0.92
41 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTTGAGACTTAGCCCGGTTATAGTA
Found at i:96080977 original size:40 final size:40
Alignment explanation
Indices: 96080925--96081040 Score: 155
Period size: 40 Copynumber: 2.9 Consensus size: 40
96080915 GGATATAACT
*
96080925 ACTCGCTCAAATGCCTTCGAGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGAGACTTAGCCCGGTTATAGTA
* * *
96080965 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATTAGTC
1 ACTCGCACAAATGCCTTCGAGACTTAGCCCGGTTA-TAGTA
*
96081005 ACTAGCACAAATGCCTTC-AGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGA-GACTTAGCCCGGTTAT
96081041 CATCCGAATA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
39 1 0.02
40 64 0.97
41 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGAGACTTAGCCCGGTTATAGTA
Found at i:96084642 original size:131 final size:130
Alignment explanation
Indices: 96084127--96084650 Score: 439
Period size: 131 Copynumber: 4.0 Consensus size: 130
96084117 TGCCTCACCC
* * * * **
96084127 TAGAAAACACGAGTGAAATTCCGAA-GAGATATTCGATTATTTTGATCAAACGGGAAATTGCAA-
1 TAGAAAACATGAGTGAAATTCTGAAGGA-ATATTCGATTATTTT-AACAAACGAGAAATCACAAC
* * * * * * * *
96084190 CCAGCACGATAGGGTACTATTCCCCGAATTGCCAAACATCAAATATCGCCTTTGTTTTAAAGGGT
64 CCAGCACGATAGGGCACGATT-CCCGAATTACCAAACACCGAGTATCGCCTTCGTTTTAAAGGAT
96084255 TTT
128 TTT
* * ** * *
96084258 TAGAAAACGTGAGTGAAATTTTGAAGGAACCTTCGATTGTTTTGACAAAACGAGAAATCACAACC
1 TAGAAAACATGAGTGAAATTCTGAAGGAATATTCGATTATTTTAAC-AAACGAGAAATCACAACC
* ** * * * * *
96084323 CAACGTGTTAGGGCACGATTCCCGAATTATCAAACACCGAGTATTGTCTTCGTTTTGGAAGG-TT
65 CAGCACGATAGGGCACGATTCCCGAATTACCAAACACCGAGTATCGCCTTCGTTTT-AAAGGATT
96084387 TT
129 TT
* ** ** * *
96084389 TA-ATAAACACGAGTGAAAACCAAAAGGAATATTCAATTGTTTTGAACAAACGAGAAATCACAAC
1 TAGA-AAACATGAGTGAAATTCTGAAGGAATATTCGATTATTTT-AACAAACGAGAAATCACAAC
* * * *
96084453 CCAGCACGATAGGGCATGATTCTCGAATTATCAAACACCGAGTATTGCCTTCGTTTTAAAGGATT
64 CCAGCACGATAGGGCACGATTCCCGAATTACCAAACACCGAGTATCGCCTTCGTTTTAAAGGATT
96084518 TT
129 TT
* * * * * * **
96084520 TAGAAGATATGAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACGGGAAATTGCAACC
1 TAGAAAACATGAGTGAAATTCTGAAGGAATATTCGATTATTTTAA-CAAACGAGAAATCACAACC
* * * * * *
96084585 TAGCACGTTAGGGCACGATTCCGCGAATTACCAAATATCGCA-TATCGCATTCG-TTTAAGGGAT
65 CAGCACGATAGGGCACGATTCC-CGAATTACCAAACACCG-AGTATCGCCTTCGTTTTAAAGGAT
96084648 TTT
128 TTT
96084651 AATAATTTTG
Statistics
Matches: 311, Mismatches: 71, Indels: 22
0.77 0.18 0.05
Matches are distributed among these distances:
130 8 0.03
131 255 0.82
132 47 0.15
133 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (130 bp):
TAGAAAACATGAGTGAAATTCTGAAGGAATATTCGATTATTTTAACAAACGAGAAATCACAACCC
AGCACGATAGGGCACGATTCCCGAATTACCAAACACCGAGTATCGCCTTCGTTTTAAAGGATTTT
Found at i:96087429 original size:21 final size:22
Alignment explanation
Indices: 96087386--96087435 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
96087376 TAACTCTTGG
*
96087386 ATTTTTTCTGAAAATAAGCTAA
1 ATTTTTTCTGAAAATAAGATAA
96087408 ATTTTCTTCT-AAAATAA-ATAA
1 ATTTT-TTCTGAAAATAAGATAA
*
96087429 ATATTTT
1 ATTTTTT
96087436 AAACTGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.08
21 7 0.28
22 12 0.48
23 4 0.16
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (22 bp):
ATTTTTTCTGAAAATAAGATAA
Found at i:96089277 original size:25 final size:24
Alignment explanation
Indices: 96089245--96089292 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
96089235 AGTAAAGACT
* *
96089245 AATGAAATAAGAAATCTATTTAAAC
1 AATGAAATAAAAAAACT-TTTAAAC
96089270 AATGAAATAAAAAAACTTTTAAA
1 AATGAAATAAAAAAACTTTTAAA
96089293 TGGTAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.27
Consensus pattern (24 bp):
AATGAAATAAAAAAACTTTTAAAC
Found at i:96089457 original size:21 final size:20
Alignment explanation
Indices: 96089407--96089468 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
96089397 AATACATGCA
* *
96089407 AAAATTTAAA-ATAAATCAT
1 AAAATATAAAGATTAATCAT
96089426 AAAATAAATAAAGATTAATACAT
1 AAAAT--ATAAAGATTAAT-CAT
*
96089449 AAAATATAAAGTTTAA-CAT
1 AAAATATAAAGATTAATCAT
96089468 A
1 A
96089469 TAGATGAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
19 9 0.25
21 14 0.39
22 5 0.14
23 8 0.22
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (20 bp):
AAAATATAAAGATTAATCAT
Found at i:96093350 original size:26 final size:26
Alignment explanation
Indices: 96093313--96093396 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
96093303 TGATACAAAT
* * *
96093313 TGATAATAGGTTAGGTAAAAGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
96093339 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
96093365 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
96093391 TGATAA
1 TGATAA
96093397 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:96098671 original size:82 final size:82
Alignment explanation
Indices: 96098562--96098894 Score: 391
Period size: 82 Copynumber: 4.1 Consensus size: 82
96098552 ACGATAGGAT
* * * * ** *
96098562 TAAATCCCTAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATTGAATAAAAT
1 TAAATCCCAAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCGAATAAAAT
*
96098627 CTTTTAAATGGCGGGAA
66 CTTTTAAACGGCGGGAA
* * * *
96098644 TGAATCCCAAAATAGAATTATTCAATTAATTCGCATTTGGAAACAAAATCAAAATCAAATAAAAT
1 TAAATCCCAAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCGAATAAAAT
96098709 -TTGTTAAACGGCGGGAA
66 CTT-TTAAACGGCGGGAA
** * ** *
96098726 TAAATCCTGAAACAGAATTATTCAATTAATTCTCGTTTGGAAATGAAATCAAAATCGAATAAACT
1 TAAATCCCAAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCGAATAAAAT
*
96098791 CTGTTAAACGGCGGGAA
66 CTTTTAAACGGCGGGAA
* * * *
96098808 CAAATCCCAAAACAAAATTATTCAATTAATTCTCACTTGGAAAC-AAATCAAAATGGAATAAAAT
1 TAAATCCCAAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCGAATAAAAT
* * * * *
96098872 ATGTTGAACGACAGGAA
66 CTTTTAAACGGCGGGAA
96098889 TAAATC
1 TAAATC
96098895 TTGAAACAGG
Statistics
Matches: 212, Mismatches: 37, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
81 38 0.18
82 173 0.82
83 1 0.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.28
Consensus pattern (82 bp):
TAAATCCCAAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCGAATAAAAT
CTTTTAAACGGCGGGAA
Found at i:96098766 original size:164 final size:163
Alignment explanation
Indices: 96098528--96098903 Score: 475
Period size: 164 Copynumber: 2.3 Consensus size: 163
96098518 AATTCTGAAA
* * * * * *
96098528 CAAAATCAAAATCAATTATGTTAAACGATAGGATTAAATCCCT-AAACAAAATTATTTAATTAAA
1 CAAAATC-AAATAAAATATGTTAAACGACAGGAATAAAT-CCTGAAACAGAATTATTCAATTAAA
* * * * ** *
96098592 TCTTGTTTGGAAACAAAATCAAAATTGAATAAAATCTTTTAAATGGCGGGAATGAATCCCAAAAT
64 TCTCGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACGGCGGGAACAAATCCCAAAAC
* *
96098657 AGAATTATTCAATTAATTCGCATTTGGAAACAAAAT
129 AAAATTATTCAATTAATTCGCACTTGGAAAC-AAAT
* * * *
96098693 CAAAATCAAATAAAATTTGTTAAACGGCGGGAATAAATCCTGAAACAGAATTATTCAATTAATTC
1 CAAAATCAAATAAAATATGTTAAACGACAGGAATAAATCCTGAAACAGAATTATTCAATTAAATC
** *
96098758 TCGTTTGGAAATGAAATCAAAATCGAATAAACTCTGTTAAACGGCGGGAACAAATCCCAAAACAA
66 TCGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACGGCGGGAACAAATCCCAAAACAA
*
96098823 AATTATTCAATTAATTCTCACTTGGAAACAAAT
131 AATTATTCAATTAATTCGCACTTGGAAACAAAT
** * *
96098856 CAAAATGGAATAAAATATGTTGAACGACAGGAATAAATCTTGAAACAG
1 CAAAATCAAATAAAATATGTTAAACGACAGGAATAAATCCTGAAACAG
96098904 GTTTTGTTGA
Statistics
Matches: 180, Mismatches: 30, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
163 48 0.27
164 125 0.69
165 7 0.04
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (163 bp):
CAAAATCAAATAAAATATGTTAAACGACAGGAATAAATCCTGAAACAGAATTATTCAATTAAATC
TCGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACGGCGGGAACAAATCCCAAAACAA
AATTATTCAATTAATTCGCACTTGGAAACAAAT
Found at i:96099599 original size:25 final size:25
Alignment explanation
Indices: 96099571--96099622 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
96099561 AGGAGCCTTT
*
96099571 AAATCAATTTGAATAAAATCAAATC
1 AAATCAATTGGAATAAAATCAAATC
** * *
96099596 AAATTGATTGGAATCAAATTAAATC
1 AAATCAATTGGAATAAAATCAAATC
96099621 AA
1 AA
96099623 GATACCTGTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.29
Consensus pattern (25 bp):
AAATCAATTGGAATAAAATCAAATC
Found at i:96099859 original size:2 final size:2
Alignment explanation
Indices: 96099852--96099885 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
96099842 GTGGGTTCTC
*
96099852 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96099886 CTTGCACTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:96106321 original size:30 final size:30
Alignment explanation
Indices: 96106280--96106341 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
96106270 GTTGTAAGAG
96106280 TTGACAGATAAGGGTTTTGTGAGACCAATT
1 TTGACAGATAAGGGTTTTGTGAGACCAATT
*
96106310 TTGATAGATAAGGGTTTTGTGAGACCAATT
1 TTGACAGATAAGGGTTTTGTGAGACCAATT
96106340 TT
1 TT
96106342 TTCTCCCTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (30 bp):
TTGACAGATAAGGGTTTTGTGAGACCAATT
Found at i:96108202 original size:19 final size:19
Alignment explanation
Indices: 96108178--96108215 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
96108168 AAGTTATAAA
96108178 AGGCTTTGGGTACAAAGTT
1 AGGCTTTGGGTACAAAGTT
96108197 AGGCTTTGGGTACAAAGTT
1 AGGCTTTGGGTACAAAGTT
96108216 GAAATTTAGT
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:0.26, C:0.11, G:0.32, T:0.32
Consensus pattern (19 bp):
AGGCTTTGGGTACAAAGTT
Found at i:96114328 original size:89 final size:89
Alignment explanation
Indices: 96114177--96114355 Score: 358
Period size: 89 Copynumber: 2.0 Consensus size: 89
96114167 ACTGAAATTC
96114177 AGGCTAAAATGGGGAAAATACCAAGTTGTGGACGAAATGGTAAAAGTAGCCATTTTCGCATACGA
1 AGGCTAAAATGGGGAAAATACCAAGTTGTGGACGAAATGGTAAAAGTAGCCATTTTCGCATACGA
96114242 GGTAAGTTCATGTGTAAATGTAGT
66 GGTAAGTTCATGTGTAAATGTAGT
96114266 AGGCTAAAATGGGGAAAATACCAAGTTGTGGACGAAATGGTAAAAGTAGCCATTTTCGCATACGA
1 AGGCTAAAATGGGGAAAATACCAAGTTGTGGACGAAATGGTAAAAGTAGCCATTTTCGCATACGA
96114331 GGTAAGTTCATGTGTAAATGTAGT
66 GGTAAGTTCATGTGTAAATGTAGT
96114355 A
1 A
96114356 ACATAATTGT
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.26
Consensus pattern (89 bp):
AGGCTAAAATGGGGAAAATACCAAGTTGTGGACGAAATGGTAAAAGTAGCCATTTTCGCATACGA
GGTAAGTTCATGTGTAAATGTAGT
Found at i:96114666 original size:46 final size:46
Alignment explanation
Indices: 96114616--96114788 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
96114606 TTGAGCATTC
*
96114616 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCT
* * * *
96114662 GAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGGCATT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATGC-CT
* ** * *
96114708 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGACGCCC
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCT
*
96114755 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
96114789 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 1 0.01
45 2 0.02
46 60 0.57
47 24 0.23
48 3 0.03
49 1 0.01
50 5 0.05
51 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCT
Found at i:96114769 original size:93 final size:93
Alignment explanation
Indices: 96114610--96114780 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
96114600 GGATGGTTGA
* * *
96114610 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
96114675 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* ** *
96114703 GCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGACGCCCGAGCTCGTTGAGT
1 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
96114768 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
96114781 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:96119588 original size:30 final size:30
Alignment explanation
Indices: 96119553--96119610 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
96119543 GAAGTATTTT
* *
96119553 TAAAATTTAGTTG-CTCTTTTTGTAAATAA
1 TAAAAATTAGATGCCTCTTTTTGTAAATAA
96119582 TAAAAATTAGATGCCTCTTTTTGTAAATA
1 TAAAAATTAGATGCCTCTTTTTGTAAATA
96119611 TTTTCAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (30 bp):
TAAAAATTAGATGCCTCTTTTTGTAAATAA
Found at i:96126952 original size:82 final size:81
Alignment explanation
Indices: 96126851--96127164 Score: 340
Period size: 82 Copynumber: 3.8 Consensus size: 81
96126841 ACGGCAAGAT
* * * ** *
96126851 TAAATCCCGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATTGAATAAAAT
1 TAAATCCCGAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATAGAATAAAAT
*
96126916 CTATTAAACAGCGGGAA
66 CTGTTAAA-AGCGGGAA
* ** * * *
96126933 TAAATCTCGAAACAGAATTATTCAATTAATTCTTGTTTGAAAACAAAATCAAAATCGACTAAAAT
1 TAAATCCCGAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATAGAATAAAAT
* * *
96126998 TTGTTAAATGACGAGAA
66 CTGTTAAAAG-CGGGAA
* * *
96127015 TAAATCTCGAAACATAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATAAAATAAAAT
1 TAAATCCCGAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATAGAATAAAAT
* * *
96127080 ATGTTAAATGGCAGGAA
66 CTGTTAAA-AGCGGGAA
* * * * * * *
96127097 TAAATCCCAAAATAGAATTATTCACTTAATTCTCACTTGGAAACGAACTCAAAATGGAATAAAAT
1 TAAATCCCGAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATAGAATAAAAT
96127162 CTG
66 CTG
96127165 CTGAACAATA
Statistics
Matches: 197, Mismatches: 33, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
81 1 0.01
82 195 0.99
83 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (81 bp):
TAAATCCCGAAACAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATAGAATAAAAT
CTGTTAAAAGCGGGAA
Found at i:96127151 original size:164 final size:164
Alignment explanation
Indices: 96126851--96127161 Score: 397
Period size: 164 Copynumber: 1.9 Consensus size: 164
96126841 ACGGCAAGAT
* ** **
96126851 TAAATCCCGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATTGAATAAAAT
1 TAAATCCCGAAACAAAATTATTCAATTAAATCTCATTTGGAAACAAAATCAAAATAAAATAAAAT
* * * * ***
96126916 CTATTAAACAGCGGGAATAAATCTCGAAACAGAATTATTCAATTAATTCTTGTTTGAAAACAAAA
66 ATATTAAACAGCAGGAATAAATCCCAAAACAGAATTATTCAATTAATTCTCACTTGAAAACAAAA
*
96126981 TCAAAATCGACTAAAATTTGTTAAATGACGAGAA
131 TCAAAATCGAATAAAATTTGTTAAATGACGAGAA
* * *
96127015 TAAATCTCGAAACATAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATAAAATAAAAT
1 TAAATCCCGAAACAAAATTATTCAATTAAATCTCATTTGGAAACAAAATCAAAATAAAATAAAAT
* ** * * * * *
96127080 ATGTTAAATGGCAGGAATAAATCCCAAAATAGAATTATTCACTTAATTCTCACTTGGAAACGAAC
66 ATATTAAACAGCAGGAATAAATCCCAAAACAGAATTATTCAATTAATTCTCACTTGAAAACAAAA
*
96127145 TCAAAATGGAATAAAAT
131 TCAAAATCGAATAAAAT
96127162 CTGCTGAACA
Statistics
Matches: 122, Mismatches: 25, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
164 122 1.00
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (164 bp):
TAAATCCCGAAACAAAATTATTCAATTAAATCTCATTTGGAAACAAAATCAAAATAAAATAAAAT
ATATTAAACAGCAGGAATAAATCCCAAAACAGAATTATTCAATTAATTCTCACTTGAAAACAAAA
TCAAAATCGAATAAAATTTGTTAAATGACGAGAA
Found at i:96128918 original size:43 final size:43
Alignment explanation
Indices: 96128871--96128974 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
96128861 CCCAACTATA
* * *
96128871 GTCTTACACGAAATC-GAATAACAATGCCAATGTCCCAGACATC
1 GTCTTACACGAAATCACAAT-ACAAAGCCAATGTCACAGACATC
* *
96128914 GTCTTACACGTAATCACAATACAAAGCCAATGTCACAGACATG
1 GTCTTACACGAAATCACAATACAAAGCCAATGTCACAGACATC
* *
96128957 GTCTTACATGTAATCACA
1 GTCTTACACGAAATCACA
96128975 TCTCGGTAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 51 0.94
44 3 0.06
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (43 bp):
GTCTTACACGAAATCACAATACAAAGCCAATGTCACAGACATC
Found at i:96141148 original size:41 final size:41
Alignment explanation
Indices: 96141091--96141182 Score: 141
Period size: 41 Copynumber: 2.3 Consensus size: 41
96141081 TAAAAGCTTA
* *
96141091 TGCCCCTTTTTGTACTTCGGTACCCATAAATTGCACATATG
1 TGCCCCTGTTTGTACTTCGGTACCCATAAATTGCACATACG
* *
96141132 TGCCCCTGTTTGTACTTCGGTACCCCTGAATTGCACATACG
1 TGCCCCTGTTTGTACTTCGGTACCCATAAATTGCACATACG
96141173 TG-CCCTGTTT
1 TGCCCCTGTTT
96141183 ACACTCCGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 8 0.17
41 39 0.83
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.36
Consensus pattern (41 bp):
TGCCCCTGTTTGTACTTCGGTACCCATAAATTGCACATACG
Found at i:96148667 original size:3 final size:3
Alignment explanation
Indices: 96148659--96148691 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
96148649 GATTCAGATT
96148659 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
96148692 AATTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:96149745 original size:21 final size:20
Alignment explanation
Indices: 96149713--96149754 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
96149703 ATATATAAAG
*
96149713 AATAAAACATATGTTGTGTTA
1 AATAAAACATAT-TTATGTTA
96149734 AATATAAA-ATATTTATGTTA
1 AATA-AAACATATTTATGTTA
96149754 A
1 A
96149755 TTTTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 8 0.42
21 8 0.42
22 3 0.16
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (20 bp):
AATAAAACATATTTATGTTA
Found at i:96150334 original size:17 final size:16
Alignment explanation
Indices: 96150307--96150338 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
96150297 TGACTTTTGA
96150307 ATTTTTAATTTTTAAT
1 ATTTTTAATTTTTAAT
96150323 ATTTTATAATTTTTAA
1 ATTTT-TAATTTTTAA
96150339 ATTATTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTTTTAATTTTTAAT
Found at i:96150584 original size:3 final size:3
Alignment explanation
Indices: 96150578--96150639 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
96150568 TATTATACAC
96150578 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96150626 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
96150640 CTAAAAAAGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:96154472 original size:15 final size:15
Alignment explanation
Indices: 96154452--96154484 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
96154442 AATAATTGGC
96154452 GAAACAAGTTTTTAT
1 GAAACAAGTTTTTAT
96154467 GAAACAAGTTTTTAT
1 GAAACAAGTTTTTAT
96154482 GAA
1 GAA
96154485 CTAATTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.36
Consensus pattern (15 bp):
GAAACAAGTTTTTAT
Found at i:96166495 original size:5 final size:5
Alignment explanation
Indices: 96166485--96166516 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
96166475 TTGTGTGTTC
96166485 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
96166517 TCACAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:96166499 original size:9 final size:9
Alignment explanation
Indices: 96166485--96166515 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
96166475 TTGTGTGTTC
96166485 TTTATTTTA
1 TTTATTTTA
96166494 TTTATTTTA
1 TTTATTTTA
96166503 TTTTATTTTA
1 -TTTATTTTA
96166513 TTT
1 TTT
96166516 TTCACAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:96171460 original size:24 final size:24
Alignment explanation
Indices: 96171424--96171469 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
96171414 TTTAATTTTC
*
96171424 AAAATTTTAAAAAAATAAAAATAA
1 AAAAATTTAAAAAAATAAAAATAA
*
96171448 AAAAATTTCAAAAAATAAAAAT
1 AAAAATTTAAAAAAATAAAAAT
96171470 TGCATTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (24 bp):
AAAAATTTAAAAAAATAAAAATAA
Found at i:96171506 original size:30 final size:29
Alignment explanation
Indices: 96171466--96171585 Score: 118
Period size: 30 Copynumber: 4.1 Consensus size: 29
96171456 CAAAAAATAA
*
96171466 AAATTGCATTTTGACCCCTAAACTTTTCCT
1 AAATTTCATTTTGACCCCTAAAC-TTTCCT
* *
96171496 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTC-CT
* *
96171526 AAATTTCACTTAGACCCCTAAACTTTCCTT
1 AAATTTCATTTTGACCCCTAAACTTTCC-T
* * * *
96171556 CAATTACATTTT-ATCCCTAAA-TTTTCT
1 AAATTTCATTTTGACCCCTAAACTTTCCT
96171583 AAA
1 AAA
96171586 AATTACATTT
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
27 3 0.04
28 4 0.05
29 12 0.16
30 55 0.74
ACGTcount: A:0.30, C:0.24, G:0.03, T:0.42
Consensus pattern (29 bp):
AAATTTCATTTTGACCCCTAAACTTTCCT
Found at i:96171828 original size:16 final size:17
Alignment explanation
Indices: 96171809--96171849 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
96171799 AAAAGAGCAA
96171809 AAAAAAAAAATT-CAGC
1 AAAAAAAAAATTCCAGC
**
96171825 -AAAAAAATTTTCCAGC
1 AAAAAAAAAATTCCAGC
96171841 AAAAAAAAA
1 AAAAAAAAA
96171850 CAACAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 9 0.45
16 4 0.20
17 7 0.35
ACGTcount: A:0.68, C:0.12, G:0.05, T:0.15
Consensus pattern (17 bp):
AAAAAAAAAATTCCAGC
Found at i:96172664 original size:17 final size:17
Alignment explanation
Indices: 96172606--96172666 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
96172596 TCCGAATTTA
96172606 ATATATATATTTT-T--
1 ATATATATATTTTGTAC
*
96172620 ATA-ACTATATTATGTAC
1 ATATA-TATATTTTGTAC
96172637 ATATATATATTTTGTAC
1 ATATATATATTTTGTAC
96172654 ATATCAT-TATTTT
1 ATAT-ATATATTTT
96172667 ATATTATTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 1 0.03
14 10 0.26
15 1 0.03
17 24 0.62
18 3 0.08
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (17 bp):
ATATATATATTTTGTAC
Found at i:96176551 original size:4 final size:4
Alignment explanation
Indices: 96176544--96176571 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
96176534 GACATTTATG
96176544 CATT CATT CATT CATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT
96176572 GCATATCCCA
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:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
CATT
Found at i:96186592 original size:49 final size:49
Alignment explanation
Indices: 96186531--96186734 Score: 365
Period size: 49 Copynumber: 4.2 Consensus size: 49
96186521 ATGTATGAGA
96186531 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
96186580 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
96186629 TGTATATGTGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
96186677 TGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
96186726 TATATATAT
1 TGTATATAT
96186735 ATGTGGCAAA
Statistics
Matches: 150, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
48 47 0.31
49 103 0.69
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.31
Consensus pattern (49 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:96186698 original size:97 final size:98
Alignment explanation
Indices: 96186531--96186734 Score: 365
Period size: 97 Copynumber: 2.1 Consensus size: 98
96186521 ATGTATGAGA
*
96186531 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAA
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
*
96186596 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GGCCTAATGGCCGACGTGATGAATGTGAAAGTG
*
96186629 TGTATATGTGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
96186693 GGCCTAATGGCCGACGTGATGAATGTGAAAGTG
66 GGCCTAATGGCCGACGTGATGAATGTGAAAGTG
*
96186726 TATATATAT
1 TGTATATAT
96186735 ATGTGGCAAA
Statistics
Matches: 101, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
97 78 0.77
98 23 0.23
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.31
Consensus pattern (98 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
GGCCTAATGGCCGACGTGATGAATGTGAAAGTG
Found at i:96186858 original size:37 final size:36
Alignment explanation
Indices: 96186803--96186889 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
96186793 AACTTGGAAA
96186803 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
96186841 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
96186878 TATGTCCGGGTA
1 TATGTCCGGGTA
96186890 AGACTTCGCA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:96188817 original size:40 final size:40
Alignment explanation
Indices: 96188773--96189042 Score: 463
Period size: 40 Copynumber: 6.8 Consensus size: 40
96188763 GAGAATTGAG
*
96188773 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
96188813 AGTGATGTATCCGGACTAAGTTCCG-AGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
96188852 AGTGATGTATCCGGACTAAGTT-CGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
96188891 AGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
96188931 AGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
96188971 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
96189011 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
96189043 ATCGCGCTGG
Statistics
Matches: 222, Mismatches: 6, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
38 2 0.01
39 71 0.32
40 149 0.67
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:96189884 original size:40 final size:41
Alignment explanation
Indices: 96189787--96189884 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 41
96189777 TCGAATGGTG
* ** * *
96189787 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTTACTAAA
1 TCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTCACTAAA
96189828 TCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAA-TCACTATAA
1 TCCGGGCT-ATGTCCCGAAGGCAATTGTGCGAAGTCACTA-AA
96189869 -CCGGGCTATGTCCCGA
1 TCCGGGCTATGTCCCGA
96189885 GGACAATCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 18 0.37
41 28 0.57
42 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (41 bp):
TCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTCACTAAA
Found at i:96189907 original size:40 final size:40
Alignment explanation
Indices: 96189829--96189926 Score: 94
Period size: 40 Copynumber: 2.5 Consensus size: 40
96189819 GTTACTAAAT
* *
96189829 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGGCAATCGAGCGAATCACTATAA
* * *
96189869 CCGGGCT-ATGTCCCG-AGGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGG-CAATCGAGCGAATCACTATAA
* *
96189909 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAATTCCCGAAGG
96189927 TACGTGGTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
39 13 0.28
40 34 0.72
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGGCAATCGAGCGAATCACTATAA
Found at i:96192714 original size:49 final size:49
Alignment explanation
Indices: 96192653--96192856 Score: 365
Period size: 49 Copynumber: 4.2 Consensus size: 49
96192643 ATGTATGAGA
96192653 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
96192702 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
96192751 TGTATATGTGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
96192799 TGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
96192848 TATATATAT
1 TGTATATAT
96192857 ATGTGGCAAA
Statistics
Matches: 150, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
48 47 0.31
49 103 0.69
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.31
Consensus pattern (49 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:96192820 original size:97 final size:98
Alignment explanation
Indices: 96192653--96192856 Score: 365
Period size: 97 Copynumber: 2.1 Consensus size: 98
96192643 ATGTATGAGA
*
96192653 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAA
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
*
96192718 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GGCCTAATGGCCGACGTGATGAATGTGAAAGTG
*
96192751 TGTATATGTGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
96192815 GGCCTAATGGCCGACGTGATGAATGTGAAAGTG
66 GGCCTAATGGCCGACGTGATGAATGTGAAAGTG
*
96192848 TATATATAT
1 TGTATATAT
96192857 ATGTGGCAAA
Statistics
Matches: 101, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
97 78 0.77
98 23 0.23
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.31
Consensus pattern (98 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
GGCCTAATGGCCGACGTGATGAATGTGAAAGTG
Found at i:96192980 original size:37 final size:36
Alignment explanation
Indices: 96192925--96193011 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
96192915 AACTTGGAAA
96192925 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
96192963 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
96193000 TATGTCCGGGTA
1 TATGTCCGGGTA
96193012 AGACTTCGCA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:96195229 original size:28 final size:28
Alignment explanation
Indices: 96195179--96195235 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
96195169 CTTTCGAGAG
*
96195179 TTGGGGTACCAGTTGCTTCTACTGTGGC
1 TTGGGGTACCAGTTGCTTCTACTATGGC
96195207 TTGGGGTACCAGTTGC-TCGTACTATGGC
1 TTGGGGTACCAGTTGCTTC-TACTATGGC
96195235 T
1 T
96195236 CAGCCGTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.12, C:0.21, G:0.32, T:0.35
Consensus pattern (28 bp):
TTGGGGTACCAGTTGCTTCTACTATGGC
Found at i:96205695 original size:54 final size:54
Alignment explanation
Indices: 96205608--96205711 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
96205598 CTCTTGATTA
* ** *
96205608 AATTGTGGTGTATTGATTAAATTGCATGAGTAATTACAATAAAATGATAACAAT
1 AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAACAAAATGATAACAAT
* *
96205662 AATTGTGGTGCATCAATTAAATTGTATGGGTAATTACAACAAAATGATAA
1 AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAACAAAATGATAA
96205712 TAGGCATGGA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.34
Consensus pattern (54 bp):
AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAACAAAATGATAACAAT
Found at i:96205814 original size:54 final size:54
Alignment explanation
Indices: 96205742--96205846 Score: 165
Period size: 54 Copynumber: 1.9 Consensus size: 54
96205732 AAATTAACAA
* *
96205742 TAATTGTGATGCACCAATTAAATTGCACGAGTAATTACAATAAAATGATAATAG
1 TAATTGTGATGCACCAATTAAATTGCACGAATAATTACAATAAAATAATAATAG
* * *
96205796 TAATTGTGGTGCATCAATTAAATTGCATGAATAATTACAATAAAATAATAA
1 TAATTGTGATGCACCAATTAAATTGCACGAATAATTACAATAAAATAATAA
96205847 CAACAATTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (54 bp):
TAATTGTGATGCACCAATTAAATTGCACGAATAATTACAATAAAATAATAATAG
Found at i:96205865 original size:135 final size:135
Alignment explanation
Indices: 96205623--96205913 Score: 388
Period size: 135 Copynumber: 2.2 Consensus size: 135
96205613 TGGTGTATTG
*
96205623 ATTAAATTGCATGAGTAATTACAATAAAATGATAACAATAATTGTGGTGCATCAATTAAATTGTA
1 ATTAAATTGCATGAGTAATTACAATAAAATGATAACAATAATTGTGGTGCATCAATTAAATTGCA
** * * * *
96205688 TGGGTAATTACAACAAAATGATAATAGGCATGGACTGGTTTTTAAAATTAACAATAATTGTGATG
66 TGAATAATTACAACAAAATAATAACAGACATGAACTGGTTTTTAAAATTAACAATAATTGTGATG
96205753 CACCA
131 CACCA
* * *
96205758 ATTAAATTGCACGAGTAATTACAATAAAATGATAATAGTAATTGTGGTGCATCAATTAAATTGCA
1 ATTAAATTGCATGAGTAATTACAATAAAATGATAACAATAATTGTGGTGCATCAATTAAATTGCA
* * * * *
96205823 TGAATAATTACAATAAAATAATAACA-ACAATTAA-TCGTTTTTTAAAATTAACAGTAATTGTGG
66 TGAATAATTACAACAAAATAATAACAGAC-ATGAACT-GGTTTTTAAAATTAACAATAATTGTGA
**
96205886 TGCATGA
129 TGCACCA
*
96205893 ATTAAATTGCATGATTAATTA
1 ATTAAATTGCATGAGTAATTA
96205914 TCACAAAAAT
Statistics
Matches: 135, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
134 2 0.01
135 133 0.99
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.33
Consensus pattern (135 bp):
ATTAAATTGCATGAGTAATTACAATAAAATGATAACAATAATTGTGGTGCATCAATTAAATTGCA
TGAATAATTACAACAAAATAATAACAGACATGAACTGGTTTTTAAAATTAACAATAATTGTGATG
CACCA
Found at i:96207054 original size:13 final size:13
Alignment explanation
Indices: 96207036--96207060 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96207026 CACAAAAAAT
96207036 TCACTTTTTATAA
1 TCACTTTTTATAA
96207049 TCACTTTTTATA
1 TCACTTTTTATA
96207061 GGCTAGGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (13 bp):
TCACTTTTTATAA
Found at i:96209922 original size:15 final size:17
Alignment explanation
Indices: 96209902--96209933 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
96209892 ATACAAATGT
96209902 AACAA-TGT-ATATATG
1 AACAATTGTAATATATG
96209917 AACAATTGTAATATATG
1 AACAATTGTAATATATG
96209934 TATTTGTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 3 0.20
17 7 0.47
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.34
Consensus pattern (17 bp):
AACAATTGTAATATATG
Found at i:96210666 original size:11 final size:12
Alignment explanation
Indices: 96210648--96210677 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
96210638 AAATTAAAGT
96210648 AGAAATTGAATA
1 AGAAATTGAATA
96210660 A-AAATTGAATA
1 AGAAATTGAATA
96210671 AGAAATT
1 AGAAATT
96210678 TAAATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.27
Consensus pattern (12 bp):
AGAAATTGAATA
Found at i:96211157 original size:26 final size:26
Alignment explanation
Indices: 96211128--96211235 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
96211118 TGATACAAAT
96211128 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
96211154 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
96211180 TGATAATGGGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
96211206 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
96211232 TGAT
1 TGAT
96211236 TGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:96215862 original size:124 final size:124
Alignment explanation
Indices: 96215640--96215864 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
96215630 GAATTATGTG
* * * * * * *
96215640 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
96215705 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
96215764 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
96215829 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTAGAAATTATAT
96215865 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 3 0.03
124 85 0.97
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:96215986 original size:40 final size:39
Alignment explanation
Indices: 96215859--96215988 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 39
96215849 TTGCTGGAAA
* *
96215859 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCTG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAG-TG
* *
96215899 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-G
*
96215939 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GT-G
96215979 TTATATCCGG
1 TTATATCCGG
96215989 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.06
40 73 0.94
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.24
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTG
Found at i:96217573 original size:44 final size:44
Alignment explanation
Indices: 96217486--96217574 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
96217476 CTTCGACCTT
* * * *
96217486 GAGTCGATGAGGCACTATAAGTGTCGTACTGTTATTTTGACTTC
1 GAGTCGATGAGGCACCATAAGTGTCATACTGCTATGTTGACTTC
**
96217530 GAGTCGATGAGGCACCATGTGTGTCATACTGCTACTGTT-ACTTC
1 GAGTCGATGAGGCACCATAAGTGTCATACTGCTA-TGTTGACTTC
96217574 G
1 G
96217575 GTTTAATCCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 35 0.92
45 3 0.08
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (44 bp):
GAGTCGATGAGGCACCATAAGTGTCATACTGCTATGTTGACTTC
Found at i:96217741 original size:18 final size:18
Alignment explanation
Indices: 96217718--96217797 Score: 97
Period size: 18 Copynumber: 4.4 Consensus size: 18
96217708 TGAATAAAGA
* *
96217718 TACTGAATGACTGACTGT
1 TACTGAATAACTGATTGT
*
96217736 TACTGAATAATTGATTGT
1 TACTGAATAACTGATTGT
*
96217754 TACTGAATAACTGATTGC
1 TACTGAATAACTGATTGT
* * *
96217772 TACTTAATAATTGATTAT
1 TACTGAATAACTGATTGT
96217790 TACTGAAT
1 TACTGAAT
96217798 GATATTGGTA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 52 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (18 bp):
TACTGAATAACTGATTGT
Done.