Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 148 of 173
Found at i:44804220 original size:20 final size:19
Alignment explanation
Indices: 44804191--44804228 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
44804181 AATAATTAAA
44804191 ATAAATAAATACTATATAT
1 ATAAATAAATACTATATAT
*
44804210 ATAATATAAATAGTATATA
1 ATAA-ATAAATACTATATA
44804229 ATTTAGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (19 bp):
ATAAATAAATACTATATAT
Found at i:44804284 original size:30 final size:27
Alignment explanation
Indices: 44804227--44804299 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 27
44804217 AAATAGTATA
* *
44804227 TAATTTAGTAAAT--AAA-AAATTATT
1 TAATTTAATAAATAAAAATAAATAATT
44804251 TAATTTAAATTAAATAGAAAATAAATAATT
1 TAATTT-AA-TAAATA-AAAATAAATAATT
44804281 TAATTTAATAAATAAAAAT
1 TAATTTAATAAATAAAAAT
44804300 TATTTCATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
24 6 0.15
25 1 0.02
26 5 0.12
27 5 0.12
28 6 0.15
29 5 0.12
30 13 0.32
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (27 bp):
TAATTTAATAAATAAAAATAAATAATT
Found at i:44808547 original size:9 final size:9
Alignment explanation
Indices: 44808533--44808558 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
44808523 ATAAACTAGA
44808533 CTAATTTGT
1 CTAATTTGT
44808542 CTAATTTGT
1 CTAATTTGT
44808551 CTAATTTG
1 CTAATTTG
44808559 GTAAAGTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.54
Consensus pattern (9 bp):
CTAATTTGT
Found at i:44813298 original size:22 final size:22
Alignment explanation
Indices: 44813249--44813298 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
44813239 AAGTTGGGTT
* *
44813249 CCACGTTGTGACGAGCCATTTC
1 CCACATTGTAACGAGCCATTTC
**
44813271 AAACATTGTAACGAGCCATTTC
1 CCACATTGTAACGAGCCATTTC
44813293 CCACAT
1 CCACAT
44813299 CGTGACATCG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (22 bp):
CCACATTGTAACGAGCCATTTC
Found at i:44819875 original size:407 final size:411
Alignment explanation
Indices: 44819110--44819880 Score: 1104
Period size: 407 Copynumber: 1.9 Consensus size: 411
44819100 TGAAGCCCAC
* * *
44819110 TGTGAGTTCGATCACAAGAAAATCGAAACAAAAAAGTAGGCAAAACACAAGGGTTAACAATTTTA
1 TGTGAGTTCGATCACAAGAAAACCAAAACAAAAAAGTAGACAAAACACAAGGGTTAACAATTTTA
* * *
44819175 AGAATAATCACAATCATAAACCACTTCAAGTTAACAAATTTTCATATCATTACTTCACTGCTCTA
66 AGAATAATCACAATCATAAA-CAC-GCAAGTTAACAAATTTTCATATCATTACTTCACTACACTA
*
44819240 TCTCAGTAATCATAGTTTTATATGCAAGTACTAATGAATGACAATGCAATTTCAATTTATCAGAA
129 TCTCAGAAATCATAGTTTTATATGCAAGTACTAATGAATGACAATGCAATTTCAATTTATCAGAA
* * *
44819305 AAGGGTCCTATTCAACTCCGCTACACATCTCACTTACGAGTTCCCCAGAACTCATCTACCATATC
194 AAGGGTCCTATCCAACTCCACTACACATCTCACTTACGAGTTCCCCAAAACTCATCTACCATATC
* * * *
44819370 ACTCCAGGTTGTGGATGAACCATCACTGATTTGCAGATAACCTACCACTTGTTGTGGATACACAA
259 ACTCCAGGTTGTGGATGAACCACCACTGAGTTGCAAATAACCTACCACTTGTTATGGATACACAA
* *
44819435 CATAATTGCAAATAAAAGTTGTCACCGGGTTTGTAAAAATTTGTGGGTAAACCACCAGTATTTTT
324 CATAATTGCAAATAAAAGCTGTCACCAGGTTTGTAAAAATTTGTGGGTAAACCACCAGTATTTTT
44819500 AGATAAAAACATTTACAAACAAG
389 AGATAAAAACATTTACAAACAAG
* * * * * *
44819523 TGTGAGTTCGATCACGAGAAAACCAAAACAAAATAGTAGACAAAGCACATGGGTTAAGAATTTTG
1 TGTGAGTTCGATCACAAGAAAACCAAAACAAAAAAGTAGACAAAACACAAGGGTTAACAATTTTA
** *
44819588 AGAATAATCACAATCAT-AA-A-GC-A-TTAACAGTTTTTCATATCATTATTTCACTACACTATC
66 AGAATAATCACAATCATAAACACGCAAGTTAACAAATTTTCATATCATTACTTCACTACACTATC
* * * * *
44819648 TTAGAAATCATAGTTATTATATGTACA-TGCTAATGAATGGCAATGCAATTTCAATTTATTAGAA
131 TCAGAAATCATAGTT-TTATATGCA-AGTACTAATGAATGACAATGCAATTTCAATTTATCAGAA
* ** *
44819712 AAGGGTCCTATCCAACTCTACTACACATCTCACTTTTGAGTTCCCCAAAACTCATCTACTATATC
194 AAGGGTCCTATCCAACTCCACTACACATCTCACTTACGAGTTCCCCAAAACTCATCTACCATATC
** * *
44819777 ACTCCAGGTTGTGGATGAACCACCGTTTAGTTGCAAATAACCTACCACTTGTTATGGGTACACAA
259 ACTCCAGGTTGTGGATGAACCACCACTGAGTTGCAAATAACCTACCACTTGTTATGGATACACAA
* *
44819842 CATAATTGCAGATAAAAGCTGTCACTAGGTTTGTAAAAA
324 CATAATTGCAAATAAAAGCTGTCACCAGGTTTGTAAAAA
44819881 ATATGTTCAG
Statistics
Matches: 316, Mismatches: 40, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
406 45 0.14
407 193 0.61
408 2 0.01
410 1 0.00
412 2 0.01
413 73 0.23
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (411 bp):
TGTGAGTTCGATCACAAGAAAACCAAAACAAAAAAGTAGACAAAACACAAGGGTTAACAATTTTA
AGAATAATCACAATCATAAACACGCAAGTTAACAAATTTTCATATCATTACTTCACTACACTATC
TCAGAAATCATAGTTTTATATGCAAGTACTAATGAATGACAATGCAATTTCAATTTATCAGAAAA
GGGTCCTATCCAACTCCACTACACATCTCACTTACGAGTTCCCCAAAACTCATCTACCATATCAC
TCCAGGTTGTGGATGAACCACCACTGAGTTGCAAATAACCTACCACTTGTTATGGATACACAACA
TAATTGCAAATAAAAGCTGTCACCAGGTTTGTAAAAATTTGTGGGTAAACCACCAGTATTTTTAG
ATAAAAACATTTACAAACAAG
Found at i:44821116 original size:18 final size:16
Alignment explanation
Indices: 44821094--44821141 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
44821084 TTATCCATTT
44821094 TATTTAATTTATATAAA
1 TATTTAATTTATA-AAA
*
44821111 TAATTTAAAACTTATAAAA
1 T-ATTT--AATTTATAAAA
44821130 TATTTAATTTAT
1 TATTTAATTTAT
44821142 TTAATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
16 6 0.23
17 1 0.04
18 8 0.31
19 4 0.15
20 7 0.27
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTTAATTTATAAAA
Found at i:44821174 original size:12 final size:13
Alignment explanation
Indices: 44821154--44821182 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
44821144 AATTTAAAAT
44821154 TTATAAAAAGTAA
1 TTATAAAAAGTAA
44821167 TTAT-AAAAGTAA
1 TTATAAAAAGTAA
44821179 TTAT
1 TTAT
44821183 TCTATCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (13 bp):
TTATAAAAAGTAA
Found at i:44823541 original size:14 final size:14
Alignment explanation
Indices: 44823524--44823557 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
44823514 TGAAAATTTA
44823524 ATAAAAATAATTAT
1 ATAAAAATAATTAT
44823538 ATAAAAATAATTAT
1 ATAAAAATAATTAT
44823552 ATAAAA
1 ATAAAA
44823558 CTATAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAAAATAATTAT
Found at i:44825857 original size:31 final size:31
Alignment explanation
Indices: 44825796--44825858 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 31
44825786 AGTCTATATA
* *
44825796 TTTATAATTTTTAAAGGATTAAATTGAATTT
1 TTTATAATTTTTAAAGGACTAAAGTGAATTT
* *
44825827 TTTATAA-TTTTAAGGGGCTAAAGTGTAATTT
1 TTTATAATTTTTAAAGGACTAAAGTG-AATTT
44825858 T
1 T
44825859 ACTTTTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (31 bp):
TTTATAATTTTTAAAGGACTAAAGTGAATTT
Found at i:44830201 original size:14 final size:14
Alignment explanation
Indices: 44830162--44830195 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
44830152 AATATTATAG
44830162 TTTTATATAATTAT
1 TTTTATATAATTAT
44830176 TTTTATATAATTAT
1 TTTTATATAATTAT
44830190 TTTTAT
1 TTTTAT
44830196 TAAATTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTATATAATTAT
Found at i:44834151 original size:20 final size:20
Alignment explanation
Indices: 44834126--44834173 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
44834116 GGTAAGTTGT
44834126 TGCATGTAACCATCTACATG
1 TGCATGTAACCATCTACATG
*
44834146 TGCATGTAACCATTTACATG
1 TGCATGTAACCATCTACATG
44834166 TGCATGTA
1 TGCATGTA
44834174 TGTGACAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (20 bp):
TGCATGTAACCATCTACATG
Found at i:44836523 original size:3 final size:3
Alignment explanation
Indices: 44836515--44836584 Score: 86
Period size: 3 Copynumber: 23.3 Consensus size: 3
44836505 AGAATAACAT
* * * *
44836515 TAA TAA TAA TGA TGA TAA TGA TAA TAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
44836563 TGA TAA TAA CAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
44836585 CTAAGGTTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:44836690 original size:20 final size:21
Alignment explanation
Indices: 44836665--44836721 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
44836655 TATTTAGAAA
44836665 AATAAATAAATAAAA-ATAAT
1 AATAAATAAATAAAATATAAT
44836685 AATAAA-AAACTAATTAATATAAT
1 AATAAATAAA-TAA--AATATAAT
*
44836708 AATAAGTAAATAAA
1 AATAAATAAATAAA
44836722 TAAAAGGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
19 3 0.10
20 9 0.29
21 1 0.03
22 2 0.06
23 13 0.42
24 3 0.10
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
AATAAATAAATAAAATATAAT
Found at i:44836702 original size:49 final size:52
Alignment explanation
Indices: 44836613--44836726 Score: 132
Period size: 47 Copynumber: 2.3 Consensus size: 52
44836603 ATGGAAGAAT
*
44836613 ATAAATAAAT-AAAATGACATAATAAAATAAATATATTTAATATATTTAGAAAA
1 ATAAATAAATAAAAATGACATAATAAAATAAATATATTTAATATA-ATA-AAAA
* *
44836666 ATAAATAAATAAAAAT-A-ATAATAAAA-AACTA-A-TTAATATAATAATAA
1 ATAAATAAATAAAAATGACATAATAAAATAAATATATTTAATATAATAAAAA
*
44836713 GTAAATAAATAAAA
1 ATAAATAAATAAAA
44836727 GGAAAAGTGA
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
47 16 0.29
48 2 0.04
49 8 0.14
50 1 0.02
51 4 0.07
52 9 0.16
53 11 0.20
54 5 0.09
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (52 bp):
ATAAATAAATAAAAATGACATAATAAAATAAATATATTTAATATAATAAAAA
Found at i:44838408 original size:44 final size:44
Alignment explanation
Indices: 44838318--44838643 Score: 223
Period size: 44 Copynumber: 7.2 Consensus size: 44
44838308 TAATCCGCTT
* * ** * * * **
44838318 CACTGCAACTTCAAGGAGATAGGATTAATAGCTACAATCTATTC
1 CACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTC
44838362 CACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTC
* * * **
44838406 CACTGTAACTTTAGGGAGATAAGGTTGGTTATCTTCAGTCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTGG-TATCTTCAACCTGCTC
* * * ** *
44838451 CATTGTAACTTCAGAGAGATAAGACTTGTTATAGTAGATTTAATCC-GAC-C
1 CACTGCAACTTCAGGGAGATAAGA-TTG-----GTATCTTCAA-CCTG-CTC
* * * *
44838501 TACTGCAACTTCAGAGG-TATAGGATT--TATCATTTTAATCC-GCTC
1 CACTGCAACTTCAG-GGAGATAAGATTGGTATC--TTCAA-CCTGCTC
** * *
44838545 CACTGCAACTTCAGGGAGATAAGATTAATAGCTTCAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTC
* *
44838589 CACTACAACTTCAGGGAGATAAGATTGGTATCTTAAACCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTC
44838633 CACTGCAACTT
1 CACTGCAACTT
44838644 TAGAAAGATA
Statistics
Matches: 221, Mismatches: 44, Indels: 34
0.74 0.15 0.11
Matches are distributed among these distances:
42 2 0.01
43 4 0.02
44 146 0.66
45 34 0.15
46 6 0.03
49 2 0.01
50 23 0.10
51 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTC
Found at i:44838610 original size:227 final size:227
Alignment explanation
Indices: 44838215--44838669 Score: 716
Period size: 227 Copynumber: 2.0 Consensus size: 227
44838205 TTGTGGTTTT
*
44838215 AGTCTGCTCCACTACAACTTCAAGGAGATAAGACTTTTTATGCTAGATTTAATCCGACCTACTGC
1 AGTCTGCTCCACTACAACTTCAAGGAGATAAGACTTGTTATGCTAGATTTAATCCGACCTACTGC
* * *
44838280 AATTTCAGAGGTATAGGATTCATCATTTTAATCCGCTTCACTGCAACTTCAAGGAGATAGGATTA
66 AACTTCAGAGGTATAGGATTCATCATTTTAATCCGCTCCACTGCAACTTCAAGGAGATAAGATTA
* * *
44838345 ATAGCTACAATCTATTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTCCACT
131 ATAGCTACAATCTACTCCACTACAACTTCAGGGAGATAAGATTGGTATCTTAAACCTGCTCCACT
* **
44838410 GTAACTTTAGGGAGATAAGGTTGGTTATCTTC
196 GCAACTTTAGAAAGATAAGGTTGGTTATCTTC
* **
44838442 AGTCTGCTCCATTGTAACTTC-AGAGAGATAAGACTTGTTATAG-TAGATTTAATCCGACCTACT
1 AGTCTGCTCCACTACAACTTCAAG-GAGATAAGACTTGTTAT-GCTAGATTTAATCCGACCTACT
* *
44838505 GCAACTTCAGAGGTATAGGATTTATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT
64 GCAACTTCAGAGGTATAGGATTCATCATTTTAATCCGCTCCACTGCAACTTCAAGGAGATAAGAT
* *
44838570 TAATAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTGGTATCTTAAACCTGCTCCA
129 TAATAGCTACAATCTACTCCACTACAACTTCAGGGAGATAAGATTGGTATCTTAAACCTGCTCCA
*
44838635 CTGCAACTTTAGAAAGATAAGGTTTGTTATCTTC
194 CTGCAACTTTAGAAAGATAAGGTTGGTTATCTTC
44838669 A
1 A
44838670 TTCTTAATTT
Statistics
Matches: 208, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
226 2 0.01
227 205 0.99
228 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (227 bp):
AGTCTGCTCCACTACAACTTCAAGGAGATAAGACTTGTTATGCTAGATTTAATCCGACCTACTGC
AACTTCAGAGGTATAGGATTCATCATTTTAATCCGCTCCACTGCAACTTCAAGGAGATAAGATTA
ATAGCTACAATCTACTCCACTACAACTTCAGGGAGATAAGATTGGTATCTTAAACCTGCTCCACT
GCAACTTTAGAAAGATAAGGTTGGTTATCTTC
Found at i:44838821 original size:51 final size:51
Alignment explanation
Indices: 44838737--44838850 Score: 156
Period size: 51 Copynumber: 2.2 Consensus size: 51
44838727 ATCCGCTCCA
* **
44838737 CTTCAGCTTTAATCTATTCCATTGCAATGCCAGGGAAATAAGATTCACTAC
1 CTTCAGCTTTAATCTATTCCACTGCAAAACCAGGGAAATAAGATTCACTAC
* * * **
44838788 CTTTAGCTTTAATCTGTTCCACTGCAAAACCAGGGCAATAAGATTCACTGT
1 CTTCAGCTTTAATCTATTCCACTGCAAAACCAGGGAAATAAGATTCACTAC
44838839 CTTCAGCTTTAA
1 CTTCAGCTTTAA
44838851 CGCTAGAGAG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (51 bp):
CTTCAGCTTTAATCTATTCCACTGCAAAACCAGGGAAATAAGATTCACTAC
Found at i:44838934 original size:87 final size:87
Alignment explanation
Indices: 44838774--44838937 Score: 202
Period size: 87 Copynumber: 1.9 Consensus size: 87
44838764 TGCCAGGGAA
* ** * * **
44838774 ATAAGATTCACTACCTTTAGCTTTAATCTGTTCCACTGCAAAACCAGGGCAATAAGATTCACTGT
1 ATAAGATTCACTACCTTTAGATTTAATCTACTCCACTGCAAAACCAGGGAAACAAGATTCACTAA
44838839 CTTCAGCTTTAACGCTAGAGAG
66 CTTCAGCTTTAACGCTAGAGAG
** * ** *
44838861 ATAAGATTTGCTACCTTTAGATTTAATCTACTCCGCTGCAACGCCAGGGAAACAAGATTCTCTAA
1 ATAAGATTCACTACCTTTAGATTTAATCTACTCCACTGCAAAACCAGGGAAACAAGATTCACTAA
*
44838926 CTTTAGCTTTAA
66 CTTCAGCTTTAA
44838938 TCTGTTCCAC
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
87 63 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (87 bp):
ATAAGATTCACTACCTTTAGATTTAATCTACTCCACTGCAAAACCAGGGAAACAAGATTCACTAA
CTTCAGCTTTAACGCTAGAGAG
Found at i:44839001 original size:21 final size:20
Alignment explanation
Indices: 44838973--44839011 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
44838963 ATAGGATTCA
44838973 CTGCCTTCAGTTTTAATCCG
1 CTGCCTTCAGTTTTAATCCG
44838993 CTGCACTTCAGTTTTAATC
1 CTGC-CTTCAGTTTTAATC
44839012 TATTCCACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.18, C:0.28, G:0.13, T:0.41
Consensus pattern (20 bp):
CTGCCTTCAGTTTTAATCCG
Found at i:44839017 original size:261 final size:261
Alignment explanation
Indices: 44838724--44839366 Score: 926
Period size: 261 Copynumber: 2.5 Consensus size: 261
44838714 ACCTTTAGCA
* * *
44838724 TTAATCCGCTCCACTTCAGCTTTAATCTATTCCATTGCAATGCCAGGGAAATAAGATTCACTACC
1 TTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTACC
* * *
44838789 TTTAGCTTTAATCTGTTCCACTGCAAAACCAGGGCAATAAGATTCACTGTCTTCAGCTTTAACGC
66 TTTAGCTTTAATTTGTTCCACTGCAAAGCCAGGGAAATAAGATTCACTGTCTTCAGCTTTAACGC
* *
44838854 TAGAGAGATAAGATTTGCTACCTTTAGATTTAATCTACTCCGCTGCAACGCCAGGGAAACAAGAT
131 TAGAGAGATAAGATTCGCTACCTTCAGATTTAATCTACTCCGCTGCAACGCCAGGGAAACAAGAT
* * * **
44838919 TCTCTAACTTTAGCTTTAATCTGTTCCACTGTAATGCCAAGGAGATAGGATTCACTGCCTTCAGT
196 TCGCCAACTTTAGCTTTAATCTATTCCACTGTAATGCCAAGGAGATAGGATTCACTGCCTTCAAC
44838984 T
261 T
* * * *
44838985 TTAATCCGCTGCACTTCAGTTTTAATCTATTCCACTGCAATGCCAGGGAAACAATATTTGCTACC
1 TTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTACC
* * **
44839050 TTTAGCTTTAATTTGTTTCATTGCAAAGCCAGGGAAATAAGATTCGTTGTCTTCAGCTTTAACGC
66 TTTAGCTTTAATTTGTTCCACTGCAAAGCCAGGGAAATAAGATTCACTGTCTTCAGCTTTAACGC
* * * * * *
44839115 TAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATTTGCTTCGCTGCAACGCCAGGGAAACAAGAT
131 TAGAGAGATAAGATTCGCTACCTTCAGATTTAATCTACTCCGCTGCAACGCCAGGGAAACAAGAT
* * * * * *
44839180 TCGCCACCTTTAGCTTTAATTTATTCCACTGTAATGCTAAGGAGATGGGATTCATTGCCTTTAAC
196 TCGCCAACTTTAGCTTTAATCTATTCCACTGTAATGCCAAGGAGATAGGATTCACTGCCTTCAAC
44839245 T
261 T
* * * *
44839246 TTAATCCGCCCCACTTCAGCTTTAACCTATTCCACTGCAACGCCAAGGAAACAAGATTCGCTACC
1 TTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTACC
* * *
44839311 TTTAGCTTTAATTTGTTCCACTGCAACGCCAGAGAAATAAGATTCACTGCCTTCAG
66 TTTAGCTTTAATTTGTTCCACTGCAAAGCCAGGGAAATAAGATTCACTGTCTTCAG
44839367 TCCGCTCCAC
Statistics
Matches: 334, Mismatches: 48, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
261 334 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (261 bp):
TTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTACC
TTTAGCTTTAATTTGTTCCACTGCAAAGCCAGGGAAATAAGATTCACTGTCTTCAGCTTTAACGC
TAGAGAGATAAGATTCGCTACCTTCAGATTTAATCTACTCCGCTGCAACGCCAGGGAAACAAGAT
TCGCCAACTTTAGCTTTAATCTATTCCACTGTAATGCCAAGGAGATAGGATTCACTGCCTTCAAC
T
Found at i:44839020 original size:21 final size:21
Alignment explanation
Indices: 44838977--44839020 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
44838967 GATTCACTGC
* *
44838977 CTTCAGTTTTAATCCGCTGCA
1 CTTCAGTTTTAATCCACTCCA
* *
44838998 CTTCAGTTTTAATCTATTCCA
1 CTTCAGTTTTAATCCACTCCA
44839019 CT
1 CT
44839021 GCAATGCCAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.09, T:0.43
Consensus pattern (21 bp):
CTTCAGTTTTAATCCACTCCA
Found at i:44839104 original size:123 final size:123
Alignment explanation
Indices: 44838882--44839367 Score: 438
Period size: 123 Copynumber: 3.8 Consensus size: 123
44838872 TACCTTTAGA
* * * * *
44838882 TTTAATCTACTCCGCTGCAACGCCAGGGAAACAAGATTCTCTAACTTTAGCTTTAATCTGTTCCA
1 TTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATTTGTTCCA
* * * * *
44838947 CTGTAATGCCAAGGAGATAGGATTCACTGCCTTCAGTTTTAATCCGCTGCACTTCAGT
66 CTGCAATGCCAAGGAAATAAGATTCATTGCCTTCAGTTTTAATCCGCTGCACTTCAGC
* * * *
44839005 TTTAATCTATTCCACTGCAATGCCAGGGAAACAATATTTGCTACCTTTAGCTTTAATTTGTTTCA
1 TTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATTTGTTCCA
* * * * * *
44839070 TTGCAAAGCCAGGGAAATAAGATTCGTTGTCTTCAGCTTTAACGCTAGGGAGATAAGATTCGCTG
66 CTGCAATGCCAAGGAAATAAGATTCATTGCCTTCAG--TT-----T-------T-A-ATCCGCTG
44839135 C-CTTCAGC
115 CACTTCAGC
* * * * *
44839143 TTTAATTTGCTT-CGCTGCAACGCCAGGGAAACAAGATTCGCCACCTTTAGCTTTAATTTATTCC
1 TTTAATCT-ATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATTTGTTCC
* * * ** * ** **
44839207 ACTGTAATGCTAAGGAGATGGGATTCATTGCCTTTAACTTTAATCCGCCCCACTTCAGC
65 ACTGCAATGCCAAGGAAATAAGATTCATTGCCTTCAGTTTTAATCCGCTGCACTTCAGC
* *
44839266 TTTAACCTATTCCACTGCAACGCCAAGGAAACAAGATTCGCTACCTTTAGCTTTAATTTGTTCCA
1 TTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATTTGTTCCA
* *
44839331 CTGCAACGCC-AGAGAAATAAGATTCACTGCCTTCAGT
66 CTGCAATGCCAAG-GAAATAAGATTCATTGCCTTCAGT
44839368 CCGCTCCACT
Statistics
Matches: 281, Mismatches: 62, Indels: 40
0.73 0.16 0.10
Matches are distributed among these distances:
122 10 0.04
123 170 0.60
124 1 0.00
125 2 0.01
130 1 0.00
131 1 0.00
136 1 0.00
137 1 0.00
138 84 0.30
139 10 0.04
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (123 bp):
TTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATTTGTTCCA
CTGCAATGCCAAGGAAATAAGATTCATTGCCTTCAGTTTTAATCCGCTGCACTTCAGC
Found at i:44840670 original size:15 final size:15
Alignment explanation
Indices: 44840647--44840678 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
44840637 TCACCTTGGC
44840647 TTCTCCTTTTTCTTT
1 TTCTCCTTTTTCTTT
*
44840662 TTCTTCTTTTTCTTT
1 TTCTCCTTTTTCTTT
44840677 TT
1 TT
44840679 TTTAAAAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTCTCCTTTTTCTTT
Found at i:44845500 original size:49 final size:52
Alignment explanation
Indices: 44845410--44845523 Score: 123
Period size: 47 Copynumber: 2.3 Consensus size: 52
44845400 ATGAAAGAAT
* *
44845410 ATAAATAAAT-AAAATGATATAATAAAATAAATATATTTAATATATTTAGAAAA
1 ATAAATAAATAAAAATGATATAATAAAATAAATATATCTAATATA-ATA-AAAA
* *
44845463 ATAAATAAATAAAAAT-A-ATAATAAAA-AACTA-A-CTAATATAATAATAA
1 ATAAATAAATAAAAATGATATAATAAAATAAATATATCTAATATAATAAAAA
*
44845510 GTAAATAAATAAAA
1 ATAAATAAATAAAA
44845524 GGAAAAGTGA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
47 16 0.29
48 2 0.04
49 7 0.13
50 1 0.02
51 4 0.07
52 9 0.16
53 11 0.20
54 5 0.09
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (52 bp):
ATAAATAAATAAAAATGATATAATAAAATAAATATATCTAATATAATAAAAA
Found at i:44847809 original size:49 final size:48
Alignment explanation
Indices: 44847737--44847896 Score: 146
Period size: 49 Copynumber: 3.2 Consensus size: 48
44847727 GGGTGGTACA
* *
44847737 AGTTGCTATCTAGATTGGCGTATGAGTTGGATGTCTGGTAGGGCATGTT
1 AGTTGCTAACTAGATTGGTGTATG-GTTGGATGTCTGGTAGGGCATGTT
* **
44847786 AGTTGCTAACTAGATTGGTGTATGTGCTTGG-TTTCCAGTAGGGCATGTT
1 AGTTGCTAACTAGATTGGTGTATG-G-TTGGATGTCTGGTAGGGCATGTT
* * *
44847835 AGTTGCTAA-TCAGCTTGGTGCTATGGGT-GATGCCATCGGTAGGGCATGTT
1 AGTTGCTAACT-AGATTGGTG-TATGGTTGGATGTC-T-GGTAGGGCATGTT
* *
44847885 AGTAGATAACTA
1 AGTTGCTAACTA
44847897 TGGCAAAGAG
Statistics
Matches: 90, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 56 0.62
50 28 0.31
51 1 0.01
ACGTcount: A:0.21, C:0.12, G:0.32, T:0.35
Consensus pattern (48 bp):
AGTTGCTAACTAGATTGGTGTATGGTTGGATGTCTGGTAGGGCATGTT
Found at i:44849529 original size:25 final size:26
Alignment explanation
Indices: 44849475--44849530 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
44849465 ACCTATTTCG
*
44849475 CTAATTAAAAAAAATGAAATAAAAAT
1 CTAATTAAAAAAAACGAAATAAAAAT
* *
44849501 -TAATT-AAAAAAACGAAATATACAT
1 CTAATTAAAAAAAACGAAATAAAAAT
44849525 CTAATT
1 CTAATT
44849531 TAGCCCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (26 bp):
CTAATTAAAAAAAACGAAATAAAAAT
Found at i:44853758 original size:16 final size:16
Alignment explanation
Indices: 44853737--44853770 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
44853727 TTTTAGAGTA
44853737 AGAAACCTATTAGACC
1 AGAAACCTATTAGACC
44853753 AGAAACCTATTAGACC
1 AGAAACCTATTAGACC
44853769 AG
1 AG
44853771 TATGTCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.24, G:0.15, T:0.18
Consensus pattern (16 bp):
AGAAACCTATTAGACC
Found at i:44868702 original size:68 final size:68
Alignment explanation
Indices: 44868570--44868703 Score: 162
Period size: 68 Copynumber: 2.0 Consensus size: 68
44868560 TTTTAATAGT
* * * *
44868570 TTAATATTAAATTAAATTTAATACTTATCTAAATAGTATTTTATTAATTTATTAATAAATTGATT
1 TTAATATTAAATTAAATTTAATACTTATCTAAATAATATTATATTAATTTAATAATAAAGTGATT
44868635 ATC
66 ATC
* * * ** *
44868638 TTAATATTTAATTTAATTTAATATTTATCTTGATAAATATTATATTAA-TTAATATTAAAGTGAT
1 TTAATATTAAATTAAATTTAATACTTATCTAAAT-AATATTATATTAATTTAATAATAAAGTGAT
44868702 TA
65 TA
44868704 AGTTTAATCA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
68 44 0.80
69 11 0.20
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.51
Consensus pattern (68 bp):
TTAATATTAAATTAAATTTAATACTTATCTAAATAATATTATATTAATTTAATAATAAAGTGATT
ATC
Found at i:44870933 original size:34 final size:34
Alignment explanation
Indices: 44870890--44870960 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
44870880 AGGCTTGAAA
44870890 AACATACCATGCAAGTGAATTGAAGCTTCACTGT
1 AACATACCATGCAAGTGAATTGAAGCTTCACTGT
*
44870924 AACATACCATGCAAGTGAATTGAAGCTTTACTGT
1 AACATACCATGCAAGTGAATTGAAGCTTCACTGT
44870958 AAC
1 AAC
44870961 TTAACTTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (34 bp):
AACATACCATGCAAGTGAATTGAAGCTTCACTGT
Found at i:44882285 original size:33 final size:33
Alignment explanation
Indices: 44882213--44882286 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
44882203 ACTCACCTCG
* * * *
44882213 TGTTTACTGTCCTGATAGATTACCTCTATTTTG
1 TGTTTACTATCCTGATAGACTACCTCTATTCTA
*
44882246 TATTTACTAT-CTCGATAGACTACCTCTATTCTA
1 TGTTTACTATCCT-GATAGACTACCTCTATTCTA
44882279 TGTTTACT
1 TGTTTACT
44882287 GCCCTAGTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 2 0.06
33 32 0.94
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (33 bp):
TGTTTACTATCCTGATAGACTACCTCTATTCTA
Found at i:44882343 original size:34 final size:33
Alignment explanation
Indices: 44882263--44882374 Score: 104
Period size: 33 Copynumber: 3.4 Consensus size: 33
44882253 TATCTCGATA
* * *
44882263 GACTACCTCTATTCTATGTTTACTG-CCCTA-G
1 GACTATCTCTATTCCATGTTTACTGTCCCAACG
* * *
44882294 TGAACTATCTTTATTCCATGTTTA-TTTCCCTTGACG
1 -G-ACTATCTCTATTCCATGTTTACTGTCCC--AACG
*
44882330 GACTATCTCTATTCCGTGTTTACTGTCCCAACG
1 GACTATCTCTATTCCATGTTTACTGTCCCAACG
44882363 GACTATCTCTAT
1 GACTATCTCTAT
44882375 GGATGTCATG
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
32 2 0.03
33 36 0.55
34 19 0.29
35 7 0.11
36 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (33 bp):
GACTATCTCTATTCCATGTTTACTGTCCCAACG
Found at i:44882465 original size:63 final size:63
Alignment explanation
Indices: 44882384--44882535 Score: 234
Period size: 63 Copynumber: 2.4 Consensus size: 63
44882374 TGGATGTCAT
*
44882384 GGAGTCTTTCATCCATGGTTTTACA-TCGATTCACCATCTTGGCACACTATCTTTTAATGCCAC
1 GGAGTCTTTCATCCATGGTCTTACACT-GATTCACCATCTTGGCACACTATCTTTTAATGCCAC
* ** * *
44882447 GGAGTCTTTCATCCATGGTCTTACACTGATTCGCCATCTTGGTGCACTATCTTTTGATGCCAT
1 GGAGTCTTTCATCCATGGTCTTACACTGATTCACCATCTTGGCACACTATCTTTTAATGCCAC
44882510 GGAGTCTTTCATCCATGGTCTTACAC
1 GGAGTCTTTCATCCATGGTCTTACAC
44882536 CGTATACCTT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
63 81 0.99
64 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (63 bp):
GGAGTCTTTCATCCATGGTCTTACACTGATTCACCATCTTGGCACACTATCTTTTAATGCCAC
Found at i:44885422 original size:161 final size:161
Alignment explanation
Indices: 44885157--44885481 Score: 614
Period size: 161 Copynumber: 2.0 Consensus size: 161
44885147 TTCGATTGTA
44885157 AAAGGTTGATATTTTGTCACCTCATGAGGTGATGTAGATCAAACCCAGAATGCCGAAACACTGAA
1 AAAGGTTGATATTTTGTCACCTCATGAGGTGATGTAGATCAAACCCAGAATGCCGAAACACTGAA
**
44885222 ACTAATAAATTTACATATAGGCCAAAAGCCATTGCTTGAGAGTTTCTTTTTTCCTCTTTCTCTGT
66 ACTAATAAATTTACATATAGGCCAAAAGCCATTGCTTGAGAGTTTCCCTTTTCCTCTTTCTCTGT
* *
44885287 CTGTTGCGCTGTTTTTGTGTTATTGGTGGTT
131 CTGTTGCCCTGTTTTTGGGTTATTGGTGGTT
44885318 AAAGGTTGATATTTTGTCACCTCATGAGGTGATGTAGATCAAACCCAGAATGCCGAAACACTGAA
1 AAAGGTTGATATTTTGTCACCTCATGAGGTGATGTAGATCAAACCCAGAATGCCGAAACACTGAA
44885383 ACTAATAAATTTACATATAGGCCAAAAGCCATTGCTTGAGAGTTTCCCTTTTCCTCTTTCTCTGT
66 ACTAATAAATTTACATATAGGCCAAAAGCCATTGCTTGAGAGTTTCCCTTTTCCTCTTTCTCTGT
44885448 CTGTTGCCCTGTTTTTGGGTTATTGGTGGTT
131 CTGTTGCCCTGTTTTTGGGTTATTGGTGGTT
44885479 AAA
1 AAA
44885482 TTTCAATAAA
Statistics
Matches: 160, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
161 160 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (161 bp):
AAAGGTTGATATTTTGTCACCTCATGAGGTGATGTAGATCAAACCCAGAATGCCGAAACACTGAA
ACTAATAAATTTACATATAGGCCAAAAGCCATTGCTTGAGAGTTTCCCTTTTCCTCTTTCTCTGT
CTGTTGCCCTGTTTTTGGGTTATTGGTGGTT
Found at i:44894021 original size:57 final size:55
Alignment explanation
Indices: 44893957--44894084 Score: 166
Period size: 57 Copynumber: 2.3 Consensus size: 55
44893947 GAAATTCACT
* *
44893957 TGAAATTGATATAAACTTATTGATTAATGATAGAATATGACACTTAAATGAATTATG
1 TGAAATTG-TATAAACTTATGGATTAACGATAGAATATGACA-TTAAATGAATTATG
* * * *
44894014 TGAAATTGGTCTAAACTTATGGATTGACGATAGAATATGACATTGAATGAGTTATG
1 TGAAATT-GTATAAACTTATGGATTAACGATAGAATATGACATTAAATGAATTATG
44894070 TGAAATTCGTATAAA
1 TGAAATT-GTATAAA
44894085 TTGGTAATGT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
56 25 0.40
57 36 0.58
58 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (55 bp):
TGAAATTGTATAAACTTATGGATTAACGATAGAATATGACATTAAATGAATTATG
Found at i:44909568 original size:47 final size:46
Alignment explanation
Indices: 44909400--44909671 Score: 287
Period size: 50 Copynumber: 5.7 Consensus size: 46
44909390 GTGAGTGTGC
* *
44909400 CAGTGTAAGACCATGTCTGGGACATGGCACCGGCACAGACTGAGGAGTG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GA--GATGAGTG
* * *
44909449 CTAGTGTAAGACGATGTCTGGGACATGGCATCGGCACGGACAGAGGAGAG
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-G--AGATGAGTG
*
44909499 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGTG
1 -CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGATGAGTG
* * * *
44909546 ACAGTGTAAGACCATGTCTGGGACATGGCATCGACACCGATATGTGATCC
1 -CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAGATGAG-T-G
* * *
44909596 CA-TGTAAGACCATGTCTGGGACATAGTATCGGCTCGAGATGAGTG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGATGAGTG
44909641 CTAGCT-TAAGACCATGTCTGGGACATGGCAT
1 C-AG-TGTAAGACCATGTCTGGGACATGGCAT
44909672 TGACACCGAT
Statistics
Matches: 190, Mismatches: 23, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
45 1 0.01
46 2 0.01
47 70 0.37
48 36 0.19
49 5 0.03
50 74 0.39
51 1 0.01
52 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGATGAGTG
Found at i:44909635 original size:95 final size:94
Alignment explanation
Indices: 44909403--44909703 Score: 374
Period size: 95 Copynumber: 3.1 Consensus size: 94
44909393 AGTGTGCCAG
* * * *
44909403 TGTAAGACCATGTCTGGGACATGGCACCGGCACAGACTGAGGAGTGCTAGTGTAAGACGATGTCT
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTC-GA--GATGAGTGCTAGTGTAAGACCATGTCT
* * * * *
44909468 GGGACATGGCATCGGCACGGACAGAGGAGAGT-CA
63 GGGACATGGCATCGACACCG--ATATGTGA-TCCA
44909502 GTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGTGAC-AGTGTAAGACCATGTCTG
1 -TGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGTG-CTAGTGTAAGACCATGTCTG
44909566 GGACATGGCATCGACACCGATATGTGATCCCA
64 GGACATGGCATCGACACCGATATGTGAT-CCA
* *
44909598 TGTAAGACCATGTCTGGGACATAGTATCGGCTCGAGATGAGTGCTAGCT-TAAGACCATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGTGCTAG-TGTAAGACCATGTCTGG
*
44909662 GACATGGCATTGACACCGATATGTGATTCCA
65 GACATGGCATCGACACCGATATGTGA-TCCA
44909693 TGTAAGACCAT
1 TGTAAGACCAT
44909704 ATTTAGGATA
Statistics
Matches: 183, Mismatches: 12, Indels: 17
0.86 0.06 0.08
Matches are distributed among these distances:
94 2 0.01
95 102 0.56
96 4 0.02
97 41 0.22
98 1 0.01
99 2 0.01
100 31 0.17
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.22
Consensus pattern (94 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGTGCTAGTGTAAGACCATGTCTGGG
ACATGGCATCGACACCGATATGTGATCCA
Found at i:44911528 original size:6 final size:6
Alignment explanation
Indices: 44911517--44911568 Score: 86
Period size: 6 Copynumber: 8.5 Consensus size: 6
44911507 CTGTGTGTTC
*
44911517 TTTATT TTTATT TCTATT TTTATT TTTATT TTTATT TTTATTT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-TT TTTATT
44911566 TTT
1 TTT
44911569 TCTTTGTGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 37 0.86
7 6 0.14
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:44916383 original size:27 final size:27
Alignment explanation
Indices: 44916319--44916383 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
44916309 GGACATTGTG
* *
44916319 CATCACATGAGCCGCATATTCAACATC
1 CATCACATGGGCCACATATTCAACATC
44916346 CATCACATGGGCCACATATTCAACATC
1 CATCACATGGGCCACATATTCAACATC
*
44916373 CATCACGTGGG
1 CATCACATGGG
44916384 TCCAATGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.22
Consensus pattern (27 bp):
CATCACATGGGCCACATATTCAACATC
Found at i:44930960 original size:29 final size:30
Alignment explanation
Indices: 44930907--44931006 Score: 76
Period size: 31 Copynumber: 3.3 Consensus size: 30
44930897 TACATTATTT
* *
44930907 TTTAATTTAATGTACAATTCTATATAT-AAAC
1 TTTAATTTAGTGT--AATTATATATATAAAAC
* *
44930938 TTTAATTTAGTGTAATTATATATGTAAAAG
1 TTTAATTTAGTGTAATTATATATATAAAAC
* ** * * *
44930968 TTTAATTGTGGTACAAATATATATTTGAAAC
1 TTTAATT-TAGTGTAATTATATATATAAAAC
44930999 TTTAATTT
1 TTTAATTT
44931007 TGATTTAATT
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
29 10 0.18
30 11 0.20
31 35 0.62
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (30 bp):
TTTAATTTAGTGTAATTATATATATAAAAC
Found at i:44933178 original size:25 final size:25
Alignment explanation
Indices: 44933123--44933178 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 25
44933113 TACTTTACAT
44933123 AGTTATAAATAATATATATTTTTTAA
1 AGTTA-AAATAATATATATTTTTTAA
44933149 A-TTAAAAT-ATATA-ATTATTTTATA
1 AGTTAAAATAATATATATT-TTTTA-A
44933173 AGTTAA
1 AGTTAA
44933179 CTTATTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 3 0.11
23 10 0.37
24 6 0.22
25 7 0.26
26 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (25 bp):
AGTTAAAATAATATATATTTTTTAA
Found at i:44935464 original size:21 final size:21
Alignment explanation
Indices: 44935440--44935480 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44935430 TTATTTAGAA
*
44935440 GATTATAATGTAAAACAAAAT
1 GATTAAAATGTAAAACAAAAT
* *
44935461 GATTAAAATTTAAAAGAAAA
1 GATTAAAATGTAAAACAAAA
44935481 ATAAAGAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.61, C:0.02, G:0.10, T:0.27
Consensus pattern (21 bp):
GATTAAAATGTAAAACAAAAT
Found at i:44943282 original size:96 final size:98
Alignment explanation
Indices: 44943115--44943290 Score: 239
Period size: 96 Copynumber: 1.8 Consensus size: 98
44943105 AAAAACGCTG
* * * * *
44943115 AAAAATTTTAAACCGAAACGCAACGTTTCGTCTTGAGCTATAGCGCCATCAGCGGCGCTTACCCG
1 AAAAATTTTAAACCAAAACGCAACGTTCCGGCTTGACCTATAGAGCCATCAGCGGCGCTTACCCG
44943180 AAAACGCCGCTATATATTAGCTAGAAGCGCCGT
66 AAAACGCCGCTATATATTAGCTAGAAGCGCCGT
* * * * * *
44943213 AAAAATTTT-GACCAAAACGCATCGTTCCGGCTTGACCTATAGAG-CGTTAGCGGCGCTTGCCTG
1 AAAAATTTTAAACCAAAACGCAACGTTCCGGCTTGACCTATAGAGCCATCAGCGGCGCTTACCCG
44943276 AAAACGCCGCTATAT
66 AAAACGCCGCTATAT
44943291 CCCTCAATTA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
96 30 0.45
97 28 0.42
98 9 0.13
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (98 bp):
AAAAATTTTAAACCAAAACGCAACGTTCCGGCTTGACCTATAGAGCCATCAGCGGCGCTTACCCG
AAAACGCCGCTATATATTAGCTAGAAGCGCCGT
Found at i:44943401 original size:209 final size:207
Alignment explanation
Indices: 44943065--44943496 Score: 622
Period size: 209 Copynumber: 2.1 Consensus size: 207
44943055 GGCGGTTGTA
*
44943065 GAAAACGCCGCTATATCCTGCAATTAGCGACGCTTAACTAAAAAACGCTGAAAAATTTTAAACCG
1 GAAAACGCCGCTATATCCTGCAATTAGCGACGCTTAACTAAAAAACGCAGAAAAATTTTAAACCG
44943130 AAACGCAACGTTTCGTCTTGAGCTATAGCGCCATCAGCGGCGCTTACCCGAAAACGCCGCTATAT
66 AAACGCAACGTTTCGTCTTGAGCTATAGCGCCATCAGCGGCGCTTACCCGAAAACGCCGCTATAT
* *
44943195 ATTAGC-TAGAAGCGCCGTAAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGA-GC
131 ATCAGCTTAG-A-CG-C--AAAAATTTTGACCAAAACGCATCGTTCCAGCTTGACCTATAGAGGC
* *
44943258 GTTAGCGGCGCTTGCCT
191 ATTAGCGGCGCTTACCT
*
44943275 GAAAACGCCGCTATATCCCT-CAATTAGCGGCGCTTAACT-AAAAACGTCAG-AAAATTTTAAAC
1 GAAAACGCCGCTATAT-CCTGCAATTAGCGACGCTTAACTAAAAAACG-CAGAAAAATTTTAAAC
* * * *
44943337 CGAAATGCAACGTTTCGTCTTGAGCTATAGCGCCGTTAGCGGCGCTTACTCGAAAACGCCGCTAT
64 CGAAACGCAACGTTTCGTCTTGAGCTATAGCGCCATCAGCGGCGCTTACCCGAAAACGCCGCTAT
* * *
44943402 ATATCAGCTTTTGATGCAAAAATTTTGACCAAAATGCATCGTTCCAGCTTGACCTATAGAGGCAT
129 ATATCAGC-TTAGACGCAAAAATTTTGACCAAAACGCATCGTTCCAGCTTGACCTATAGAGGCAT
**
44943467 TAGCGGCGCTTATTT
193 TAGCGGCGCTTACCT
44943482 GAAAACGCCGCTATA
1 GAAAACGCCGCTATA
44943497 GAGCAACTTT
Statistics
Matches: 202, Mismatches: 15, Indels: 13
0.88 0.07 0.06
Matches are distributed among these distances:
206 41 0.20
207 30 0.15
208 1 0.00
209 88 0.44
210 37 0.18
211 5 0.02
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (207 bp):
GAAAACGCCGCTATATCCTGCAATTAGCGACGCTTAACTAAAAAACGCAGAAAAATTTTAAACCG
AAACGCAACGTTTCGTCTTGAGCTATAGCGCCATCAGCGGCGCTTACCCGAAAACGCCGCTATAT
ATCAGCTTAGACGCAAAAATTTTGACCAAAACGCATCGTTCCAGCTTGACCTATAGAGGCATTAG
CGGCGCTTACCT
Found at i:44944000 original size:22 final size:21
Alignment explanation
Indices: 44943973--44944014 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
44943963 GGTGGTTATG
* *
44943973 GTTTATGGTTTACGGGTTTAAT
1 GTTTATGATTTA-AGGTTTAAT
44943995 GTTTATGATTTAAGGTTTAA
1 GTTTATGATTTAAGGTTTAA
44944015 GATTTTTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.50
Consensus pattern (21 bp):
GTTTATGATTTAAGGTTTAAT
Found at i:44944105 original size:7 final size:7
Alignment explanation
Indices: 44944093--44944155 Score: 54
Period size: 7 Copynumber: 9.0 Consensus size: 7
44944083 GTTAATTGAT
44944093 GGGTTTA
1 GGGTTTA
44944100 GGGTTTA
1 GGGTTTA
*
44944107 AGGTTTA
1 GGGTTTA
* *
44944114 CGGTTTG
1 GGGTTTA
*
44944121 GGGTTTG
1 GGGTTTA
44944128 GGGTTTA
1 GGGTTTA
*
44944135 AGGTTTA
1 GGGTTTA
**
44944142 TAGTTTA
1 GGGTTTA
*
44944149 GAGTTTA
1 GGGTTTA
44944156 AGATTTATGG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.17, C:0.02, G:0.37, T:0.44
Consensus pattern (7 bp):
GGGTTTA
Found at i:44944113 original size:14 final size:14
Alignment explanation
Indices: 44944094--44944141 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
44944084 TTAATTGATG
44944094 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
* **
44944108 GGTTTACGGTTTGG
1 GGTTTAGGGTTTAA
*
44944122 GGTTTGGGGTTTAA
1 GGTTTAGGGTTTAA
44944136 GGTTTA
1 GGTTTA
44944142 TAGTTTAGAG
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.15, C:0.02, G:0.40, T:0.44
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:44944147 original size:28 final size:28
Alignment explanation
Indices: 44944093--44944147 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
44944083 GTTAATTGAT
*
44944093 GGGTTTAGGGTTTAAGGTTTACGGTTTG
1 GGGTTTAGGGTTTAAGGTTTACAGTTTG
* *
44944121 GGGTTTGGGGTTTAAGGTTTATAGTTT
1 GGGTTTAGGGTTTAAGGTTTACAGTTT
44944148 AGAGTTTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.15, C:0.02, G:0.38, T:0.45
Consensus pattern (28 bp):
GGGTTTAGGGTTTAAGGTTTACAGTTTG
Found at i:44944154 original size:28 final size:28
Alignment explanation
Indices: 44944095--44944155 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
44944085 TAATTGATGG
* * *
44944095 GTTTAGGGTTTAAGGTTTACGGTTTGGG
1 GTTTAGGGTTTAAGGTTTACAGTTTAGA
* *
44944123 GTTTGGGGTTTAAGGTTTATAGTTTAGA
1 GTTTAGGGTTTAAGGTTTACAGTTTAGA
44944151 GTTTA
1 GTTTA
44944156 AGATTTATGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.02, G:0.34, T:0.46
Consensus pattern (28 bp):
GTTTAGGGTTTAAGGTTTACAGTTTAGA
Found at i:44944311 original size:15 final size:15
Alignment explanation
Indices: 44944291--44944320 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44944281 GCTTTTTTAG
*
44944291 AATATAAATGTAAAT
1 AATATAAATATAAAT
44944306 AATATAAATATAAAT
1 AATATAAATATAAAT
44944321 TATTATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AATATAAATATAAAT
Found at i:44944567 original size:21 final size:20
Alignment explanation
Indices: 44944527--44944564 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
44944517 AATATATTGA
*
44944527 TGTATTTATTTTTTAAAATG
1 TGTAATTATTTTTTAAAATG
44944547 TGTAATTATTTTTTAAAA
1 TGTAATTATTTTTTAAAA
44944565 ATGCATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TGTAATTATTTTTTAAAATG
Found at i:44945125 original size:19 final size:20
Alignment explanation
Indices: 44945084--44945127 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
44945074 AACTGTCATC
*
44945084 TCCCCTAAATCCCTAAAATT
1 TCCCCTAAATCCCTAAAAGT
*
44945104 TCCCCT-AATCCCTAACAGT
1 TCCCCTAAATCCCTAAAAGT
44945123 TCCCC
1 TCCCC
44945128 AAACCCAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.27, C:0.43, G:0.02, T:0.27
Consensus pattern (20 bp):
TCCCCTAAATCCCTAAAAGT
Found at i:44945495 original size:6 final size:6
Alignment explanation
Indices: 44945484--44945570 Score: 174
Period size: 6 Copynumber: 14.5 Consensus size: 6
44945474 GAAATTTATA
44945484 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
44945532 TATATG TATATG TATATG TATATG TATATG TATATG TAT
1 TATATG TATATG TATATG TATATG TATATG TATATG TAT
44945571 TAAAACTAAA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 81 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:44952266 original size:21 final size:21
Alignment explanation
Indices: 44952242--44952281 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44952232 ACATTAAGCT
44952242 GAGGCAGAAGCGAGGGAAGTG
1 GAGGCAGAAGCGAGGGAAGTG
* *
44952263 GAGGCTGCAGCGAGGGAAG
1 GAGGCAGAAGCGAGGGAAG
44952282 CAGAGCAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.53, T:0.05
Consensus pattern (21 bp):
GAGGCAGAAGCGAGGGAAGTG
Found at i:44952695 original size:43 final size:43
Alignment explanation
Indices: 44952635--44952943 Score: 327
Period size: 43 Copynumber: 7.2 Consensus size: 43
44952625 CCATCTATTA
* * *
44952635 CGGCGTTTTTGGAAAAAGCGCCGCTAAAGAACATGACCTTTAC
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTTTAG
* * * * * *
44952678 CGACGCTTGTGGGAAAAGCGCCGCTAAA-AGTCAGGATCTATAG
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGA-ACATGACCTTTAG
* * *
44952721 CGGCGATTGTGGGATAAGCGCCGCTAAAGAGCATGACCTTTAG
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTTTAG
* *
44952764 CGGCGTTTGTGGGATAAA-CGTCGCTAAAGAACATGAGCTTTAG
1 CGGCGTTTGTGGGA-AAAGCGCCGCTAAAGAACATGACCTTTAG
* * *
44952807 CGGCATTTGT-GGAATAAGTGCCGCTAAAGAGCATGACCTTTAG
1 CGGCGTTTGTGGGAA-AAGCGCCGCTAAAGAACATGACCTTTAG
** * * *
44952850 CGGCGTTTGTGGGATCAGCGCCGCTAAAGAACATAAGCTTTTG
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTTTAG
* * ** *
44952893 CGGCGTTTGTGGGATAAGCACCGCTAAAGGTCATGACCTTTAA
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTTTAG
44952936 CGGCGTTT
1 CGGCGTTT
44952944 ATTTCTATAA
Statistics
Matches: 218, Mismatches: 42, Indels: 12
0.80 0.15 0.04
Matches are distributed among these distances:
41 1 0.00
42 6 0.03
43 205 0.94
44 6 0.03
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (43 bp):
CGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTTTAG
Found at i:44957664 original size:25 final size:27
Alignment explanation
Indices: 44957619--44957673 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 27
44957609 TGTAAAAAAG
*
44957619 TAAAGAAATAATAAATAAATA-A-ATA
1 TAAAGAAAAAATAAATAAATATACATA
*
44957644 TAAAGAAAAAATAGAA-CAATATACATA
1 TAAAGAAAAAATA-AATAAATATACATA
44957671 TAA
1 TAA
44957674 GAATCTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 16 0.64
26 3 0.12
27 6 0.24
ACGTcount: A:0.69, C:0.04, G:0.05, T:0.22
Consensus pattern (27 bp):
TAAAGAAAAAATAAATAAATATACATA
Found at i:44962542 original size:20 final size:20
Alignment explanation
Indices: 44962513--44962559 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
44962503 ACTAAATATT
* *
44962513 GATACGTGCAATTTTGTGTC
1 GATACCTGCAATTTTGTATC
44962533 GATACCTGCAATTTTGTATC
1 GATACCTGCAATTTTGTATC
44962553 GATACCT
1 GATACCT
44962560 ACTTTGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (20 bp):
GATACCTGCAATTTTGTATC
Found at i:44964912 original size:51 final size:51
Alignment explanation
Indices: 44964852--44964959 Score: 171
Period size: 51 Copynumber: 2.1 Consensus size: 51
44964842 TTCTTTTTAG
44964852 ATATTGATATATTAACTCTTCTAGAGCTTTCAACTAATTTTGTACGACCAA
1 ATATTGATATATTAACTCTTCTAGAGCTTTCAACTAATTTTGTACGACCAA
* * ** *
44964903 ATATTGATATATTAACTTTTCTGGAGCTTTTGACTAATTTTGTACTACCAA
1 ATATTGATATATTAACTCTTCTAGAGCTTTCAACTAATTTTGTACGACCAA
44964954 ATATTG
1 ATATTG
44964960 GAATAATATT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (51 bp):
ATATTGATATATTAACTCTTCTAGAGCTTTCAACTAATTTTGTACGACCAA
Found at i:44968174 original size:22 final size:20
Alignment explanation
Indices: 44968131--44968173 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
44968121 AAAAAAAAAC
*
44968131 TTGGTGTTGTTTCCACTGTT
1 TTGGTGCTGTTTCCACTGTT
44968151 TTGGTGCTGCTTTGCCACT-TT
1 TTGGTGCTG-TTT-CCACTGTT
44968172 TT
1 TT
44968174 TTGTCATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 7 0.35
22 5 0.25
ACGTcount: A:0.05, C:0.19, G:0.23, T:0.53
Consensus pattern (20 bp):
TTGGTGCTGTTTCCACTGTT
Found at i:44972689 original size:150 final size:150
Alignment explanation
Indices: 44972418--44972705 Score: 576
Period size: 150 Copynumber: 1.9 Consensus size: 150
44972408 GAACCAATAT
44972418 TTTCTTGTAGCTTTTGATACTTGCAATTGATGCTTGGATTTTGTGTTAGAAAGATGCAGGCATAA
1 TTTCTTGTAGCTTTTGATACTTGCAATTGATGCTTGGATTTTGTGTTAGAAAGATGCAGGCATAA
44972483 ATCTATCTTATTTTATTTTAATTTTACAATATTGAAATTTACTGACTTGAAAAATGCTGTGGTTG
66 ATCTATCTTATTTTATTTTAATTTTACAATATTGAAATTTACTGACTTGAAAAATGCTGTGGTTG
44972548 TAAAATTTATATGATGAACA
131 TAAAATTTATATGATGAACA
44972568 TTTCTTGTAGCTTTTGATACTTGCAATTGATGCTTGGATTTTGTGTTAGAAAGATGCAGGCATAA
1 TTTCTTGTAGCTTTTGATACTTGCAATTGATGCTTGGATTTTGTGTTAGAAAGATGCAGGCATAA
44972633 ATCTATCTTATTTTATTTTAATTTTACAATATTGAAATTTACTGACTTGAAAAATGCTGTGGTTG
66 ATCTATCTTATTTTATTTTAATTTTACAATATTGAAATTTACTGACTTGAAAAATGCTGTGGTTG
44972698 TAAAATTT
131 TAAAATTT
44972706 GGAATCTATC
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 138 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (150 bp):
TTTCTTGTAGCTTTTGATACTTGCAATTGATGCTTGGATTTTGTGTTAGAAAGATGCAGGCATAA
ATCTATCTTATTTTATTTTAATTTTACAATATTGAAATTTACTGACTTGAAAAATGCTGTGGTTG
TAAAATTTATATGATGAACA
Found at i:44978281 original size:13 final size:13
Alignment explanation
Indices: 44978263--44978287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44978253 AAAGAGATTT
44978263 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
44978276 GTTTTCTAGTAA
1 GTTTTCTAGTAA
44978288 GAAATTGAAC
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:0.08, G:0.16, T:0.48
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:44986984 original size:89 final size:89
Alignment explanation
Indices: 44986402--44987026 Score: 885
Period size: 89 Copynumber: 7.0 Consensus size: 89
44986392 GCAGGTTGAA
* * * **
44986402 AAGAAAATAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTC
1 AAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTC
*
44986467 CCATACTGGTGGCGAAGTAGATCA
66 CCATACTGGTGGCGAAGTAGATCG
* * * *
44986491 AAGAAAATAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTC
1 AAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTC
44986556 CCATACTGGTGGCGAAGTAGATCG
66 CCATACTGGTGGCGAAGTAGATCG
* * * *
44986580 AAGAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATTTTGTCTTC
1 AAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTC
44986645 CCATACTGGTGGCGAAGTAGATCG
66 CCATACTGGTGGCGAAGTAGATCG
** * * * *
44986669 AAGAAAGCAGATCTTGTCTTCATGTACTGGCGAGAAGTAGATCAGAGATACCAAATCTTGCCTTC
1 AAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTC
* **
44986734 CCATACTGGTGGCGAAGCAGATTA
66 CCATACTGGTGGCGAAGTAGATCG
** *
44986758 AAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAA-ATACCAGATCTTGCCTT
1 AAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCA-AAGATACCAGATCTTGTCTT
* * *
44986822 CCCATACCGGTGGCAAAGTAGATCA
65 CCCATACTGGTGGCGAAGTAGATCG
44986847 AAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTC
1 AAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTC
44986912 CCATACTGGTGGCGAAGTAGATCG
66 CCATACTGGTGGCGAAGTAGATCG
* * * * *
44986936 AAGAAAATAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTATCTTC
1 AAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTC
* * *
44987001 CTATA-TCGGTAGCGAAGTGGATCG
66 CCATACT-GGTGGCGAAGTAGATCG
44987025 AA
1 AA
44987027 TATACATATT
Statistics
Matches: 492, Mismatches: 41, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
88 3 0.01
89 488 0.99
90 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (89 bp):
AAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTC
CCATACTGGTGGCGAAGTAGATCG
Found at i:44987399 original size:11 final size:11
Alignment explanation
Indices: 44987383--44987478 Score: 85
Period size: 11 Copynumber: 8.8 Consensus size: 11
44987373 ATTTTTTTAA
44987383 TTTTAAAATAT
1 TTTTAAAATAT
44987394 TTTTAAAATACT
1 TTTTAAAATA-T
**
44987406 TTTTTTAAT-T
1 TTTTAAAATAT
* *
44987416 TTTT---TTAA
1 TTTTAAAATAT
44987424 TTTTAAAATAT
1 TTTTAAAATAT
44987435 TTTTAAAATAT
1 TTTTAAAATAT
44987446 TTTTAAAATACTTT
1 TTTTAAAATA---T
44987460 TTTTAAAAT-T
1 TTTTAAAATAT
44987470 TTTTAAAAT
1 TTTTAAAAT
44987479 TTTAAAAATA
Statistics
Matches: 71, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
7 1 0.01
8 4 0.06
10 15 0.21
11 33 0.46
12 8 0.11
14 10 0.14
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:44987431 original size:41 final size:40
Alignment explanation
Indices: 44987335--44987449 Score: 173
Period size: 41 Copynumber: 2.9 Consensus size: 40
44987325 AAATATATTT
* * *
44987335 ATTTTTTAAATTTTAAAATATTTTTTACATAC--TTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
44987373 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
44987413 ATTTTTTTTAATTTTAAAATATTTTTAAAATA-TTTTT
1 A-TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT
44987450 AAAATACTTT
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 29 0.41
40 12 0.17
41 30 0.42
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.63
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:44987445 original size:52 final size:53
Alignment explanation
Indices: 44987383--44987485 Score: 172
Period size: 52 Copynumber: 1.9 Consensus size: 53
44987373 ATTTTTTTAA
**
44987383 TTTTAAAATATTTTTAAAATACTTTTTTT-AATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATATTTTTAAAATACTTTTTTTAAATTTTTTAAAATTTTAAAATAT
44987435 TTTTAAAATATTTTTAAAATACTTTTTTTAAAATTTTTTAAAATTTTAAAA
1 TTTTAAAATATTTTTAAAATACTTTTTTT-AAATTTTTTAAAATTTTAAAA
44987486 ATAAAAATAG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 29 0.62
54 18 0.38
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (53 bp):
TTTTAAAATATTTTTAAAATACTTTTTTTAAATTTTTTAAAATTTTAAAATAT
Found at i:44987462 original size:41 final size:38
Alignment explanation
Indices: 44987335--44987451 Score: 173
Period size: 38 Copynumber: 3.0 Consensus size: 38
44987325 AAATATATTT
* * *
44987335 ATTTTTTAAATTTTAAAATATTTTTTACATACTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTA
44987373 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATAC--TTTTTA
44987413 ATTTTTTTTAATTTTAAAATATTTTTAAAATA-TTTTTA
1 A-TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTA
44987451 A
1 A
44987452 AATACTTTTT
Statistics
Matches: 73, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
38 36 0.49
40 7 0.10
41 30 0.41
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (38 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTA
Found at i:44992055 original size:18 final size:19
Alignment explanation
Indices: 44992018--44992055 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
44992008 ATATAAATTT
*
44992018 TAGAATTTTAAAAATTAAA
1 TAGAATTTTAAAAATAAAA
*
44992037 TAGAGTTTTAAAAA-AAAA
1 TAGAATTTTAAAAATAAAA
44992055 T
1 T
44992056 TATAACTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (19 bp):
TAGAATTTTAAAAATAAAA
Found at i:44993604 original size:18 final size:18
Alignment explanation
Indices: 44993581--44993623 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
44993571 TCTTTATATT
*
44993581 TATGGGTTGCGAAGAGGC
1 TATGGGTTGAGAAGAGGC
*
44993599 TATGGGTTGAGGAGAGGC
1 TATGGGTTGAGAAGAGGC
44993617 TATGGGT
1 TATGGGT
44993624 AGTTTTAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.07, G:0.47, T:0.26
Consensus pattern (18 bp):
TATGGGTTGAGAAGAGGC
Found at i:44994305 original size:24 final size:23
Alignment explanation
Indices: 44994272--44994358 Score: 95
Period size: 23 Copynumber: 3.7 Consensus size: 23
44994262 TCATTAATAT
*
44994272 TGTTCGTGAACATGTTCAATTATA
1 TGTTCATGAACATGTTCAATTA-A
*
44994296 TGTTCATGAACATGTTCATTTAA
1 TGTTCATGAACATGTTCAATTAA
** *
44994319 TGTTTGTGAACATGTTCGATTAA
1 TGTTCATGAACATGTTCAATTAA
*
44994342 -GTTAAATGAACATGTTC
1 TGTT-CATGAACATGTTC
44994359 GTGGATATTA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 3 0.06
23 31 0.57
24 20 0.37
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.41
Consensus pattern (23 bp):
TGTTCATGAACATGTTCAATTAA
Found at i:44994328 original size:23 final size:24
Alignment explanation
Indices: 44994272--44994340 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
44994262 TCATTAATAT
44994272 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
* *
44994296 TGTTCATGAACATGTTCATTTA-A
1 TGTTCGTGAACATGTTCAATTATA
* *
44994319 TGTTTGTGAACATGTTCGATTA
1 TGTTCGTGAACATGTTCAATTA
44994341 AGTTAAATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 19 0.49
24 20 0.51
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCAATTATA
Found at i:44995608 original size:7 final size:7
Alignment explanation
Indices: 44995596--44995621 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
44995586 GATATGCGCT
44995596 TGCAGAC
1 TGCAGAC
44995603 TGCAGAC
1 TGCAGAC
44995610 TGCAGAC
1 TGCAGAC
44995617 TGCAG
1 TGCAG
44995622 TGCGCAGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.31, T:0.15
Consensus pattern (7 bp):
TGCAGAC
Found at i:45009509 original size:34 final size:34
Alignment explanation
Indices: 45009448--45009515 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
45009438 GCACAGTTGA
* *
45009448 ATAGTCTTGGGCCTAAACCCTTTTCAGTATCAGTG
1 ATAGTCTTGGGCCTAAACCCATCTCAGTA-CAGTG
* *
45009483 ATAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ATAGTCTTGGGCCTAAACCCATCTCAGTACAGTG
45009516 TCAAAAATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 19 0.66
35 5 0.17
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (34 bp):
ATAGTCTTGGGCCTAAACCCATCTCAGTACAGTG
Found at i:45021652 original size:14 final size:14
Alignment explanation
Indices: 45021633--45021678 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
45021623 GACTCGTTAA
45021633 TTTTATATAATTAT
1 TTTTATATAATTAT
45021647 TTTTATA-AATATAT
1 TTTTATATAAT-TAT
* *
45021661 TTTTACATAATTCT
1 TTTTATATAATTAT
45021675 TTTT
1 TTTT
45021679 TCAATCATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 3 0.11
14 22 0.79
15 3 0.11
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTATATAATTAT
Found at i:45026213 original size:22 final size:22
Alignment explanation
Indices: 45026187--45026232 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
45026177 TTATTCTATG
45026187 AATTGATATATGT-TTATAAATT
1 AATTGA-ATATGTGTTATAAATT
* *
45026209 AATTGAATATTTGTTCTAAATT
1 AATTGAATATGTGTTATAAATT
45026231 AA
1 AA
45026233 GATAAATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (22 bp):
AATTGAATATGTGTTATAAATT
Found at i:45028271 original size:43 final size:41
Alignment explanation
Indices: 45028188--45028413 Score: 197
Period size: 43 Copynumber: 5.4 Consensus size: 41
45028178 GTGGATTCAA
**
45028188 CACTTAGCAACCACC-TTA-AATTCAGTGATACGGGGAATCAG
1 CACTTAGCAACC-CCTTTACAA-TCAAAGATACGGGGAATCAG
* *
45028229 CACATAGCAACCCCTTTCACAATCAAAGATACGATGGAATCAG
1 CACTTAGCAACCCCTTT-ACAATCAAAGATACG-GGGAATCAG
* * ** * *
45028272 CACTTAGCAACCACCTTTATATTCAGTGATATGGGGAATCAA
1 CACTTAGCAACC-CCTTTACAATCAAAGATACGGGGAATCAG
* * * *
45028314 CACATAGCAACCCATTTCACAATCAAATATACGGTGGAATTAG
1 CACTTAGCAACCCCTTT-ACAATCAAAGATACGG-GGAATCAG
* * *
45028357 CACTTAGCAACCACCTTTAGAATCAATA-ATTCGGGGAATCAA
1 CACTTAGCAACC-CCTTTACAATCAA-AGATACGGGGAATCAG
45028399 CACTTAGCAACCCCT
1 CACTTAGCAACCCCT
45028414 CGGGGAATCT
Statistics
Matches: 148, Mismatches: 28, Indels: 18
0.76 0.14 0.09
Matches are distributed among these distances:
40 2 0.01
41 20 0.14
42 56 0.38
43 60 0.41
44 10 0.07
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (41 bp):
CACTTAGCAACCCCTTTACAATCAAAGATACGGGGAATCAG
Found at i:45028332 original size:85 final size:85
Alignment explanation
Indices: 45028179--45028411 Score: 319
Period size: 85 Copynumber: 2.8 Consensus size: 85
45028169 CGTTACTCGG
* * * * *
45028179 TGGATTCAACACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAATCAGCACATAGCAACCCC
1 TGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATATGGGGAATCAACACATAGCAACCCA
45028243 TTTCACAATCAAAGATACGA
66 TTTCACAATCAAAGATACGA
*
45028263 TGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATATGGGGAATCAACACATAGCAACCCA
1 TGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATATGGGGAATCAACACATAGCAACCCA
* *
45028328 TTTCACAATCAAATATACGG
66 TTTCACAATCAAAGATACGA
* * * *
45028348 TGGAATTAGCACTTAGCAACCACCTTTAGAA-TCAATAAT-TCGGGGAATCAACACTTAGCAACC
1 TGGAATCAGCACTTAGCAACCACCTTTA-AATTCAGTGATAT-GGGGAATCAACACATAGCAACC
45028411 C
64 C
45028412 CTCGGGGAAT
Statistics
Matches: 133, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
84 23 0.17
85 109 0.82
86 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.23
Consensus pattern (85 bp):
TGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATATGGGGAATCAACACATAGCAACCCA
TTTCACAATCAAAGATACGA
Found at i:45028416 original size:26 final size:26
Alignment explanation
Indices: 45028387--45028439 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
45028377 AATCAATAAT
45028387 TCGGGGAATCAACACTTAGCAACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
** *
45028413 TCGGGGAATCTGCACTTAGCGACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
45028439 T
1 T
45028440 TTTTATCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.34, G:0.23, T:0.19
Consensus pattern (26 bp):
TCGGGGAATCAACACTTAGCAACCCC
Found at i:45033482 original size:7 final size:8
Alignment explanation
Indices: 45033458--45033486 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
45033448 GTAGTGTTTG
45033458 ACATAAAC
1 ACATAAAC
45033466 ACATAAAC
1 ACATAAAC
45033474 ACA-AAAC
1 ACATAAAC
45033481 ACATAA
1 ACATAA
45033487 GGGAGACAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.66, C:0.24, G:0.00, T:0.10
Consensus pattern (8 bp):
ACATAAAC
Found at i:45041964 original size:19 final size:20
Alignment explanation
Indices: 45041924--45041968 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
45041914 CGTAATATTT
* *
45041924 TTTTTTGTACTTTCTTATAA
1 TTTTTTATACTTTCTTAGAA
45041944 TTTTTTATACTTT-TTAGAA
1 TTTTTTATACTTTCTTAGAA
45041963 TTTTTT
1 TTTTTT
45041969 TGGTATACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTTTATACTTTCTTAGAA
Found at i:45042871 original size:20 final size:19
Alignment explanation
Indices: 45042834--45042949 Score: 81
Period size: 20 Copynumber: 5.8 Consensus size: 19
45042824 GTGCTTCCTA
*
45042834 ATTTTTGGTATCCCCTCAT
1 ATTTTTGGTATTCCCTCAT
* *
45042853 GTTATTTGGTATTCTCTCAT
1 ATT-TTTGGTATTCCCTCAT
** *
45042873 AATTTTTGACACTT-TCTCAT
1 -ATTTTTGGTA-TTCCCTCAT
* *
45042893 ATTTTTTGGTATTCACTTAT
1 A-TTTTTGGTATTCCCTCAT
*
45042913 AATTTTTTGTATTCCCTCAT
1 -ATTTTTGGTATTCCCTCAT
*
45042933 GTTTTTTGGTATTCCCT
1 -ATTTTTGGTATTCCCT
45042950 TAAAAAATTT
Statistics
Matches: 75, Mismatches: 16, Indels: 11
0.74 0.16 0.11
Matches are distributed among these distances:
19 5 0.07
20 65 0.87
21 5 0.07
ACGTcount: A:0.17, C:0.18, G:0.10, T:0.54
Consensus pattern (19 bp):
ATTTTTGGTATTCCCTCAT
Found at i:45042932 original size:40 final size:40
Alignment explanation
Indices: 45042832--45042951 Score: 127
Period size: 40 Copynumber: 3.0 Consensus size: 40
45042822 TAGTGCTTCC
* * * * *
45042832 TAATTTTTGGTATCCCCTCATGTTATTTGGTATTCTCTCA
1 TAATTTTTTGTATTCCCTCATGTTTTTTGGTATTCACTTA
* * *
45042872 TAA-TTTTTGACACTT-TCTCATATTTTTTGGTATTCACTTA
1 TAATTTTTTG-TA-TTCCCTCATGTTTTTTGGTATTCACTTA
*
45042912 TAATTTTTTGTATTCCCTCATGTTTTTTGGTATTCCCTTA
1 TAATTTTTTGTATTCCCTCATGTTTTTTGGTATTCACTTA
45042952 AAAAATTTTG
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
39 7 0.11
40 50 0.78
41 7 0.11
ACGTcount: A:0.18, C:0.17, G:0.10, T:0.54
Consensus pattern (40 bp):
TAATTTTTTGTATTCCCTCATGTTTTTTGGTATTCACTTA
Found at i:45044760 original size:34 final size:35
Alignment explanation
Indices: 45044663--45044760 Score: 94
Period size: 34 Copynumber: 2.9 Consensus size: 35
45044653 GCATTTAATT
* * * *
45044663 ATGCTTTTAACAGAACAATATGA-TAGC-AATCAAT
1 ATGCTTATAACAGATCAAT-TCAGTAGCAAATCAAA
* * * *
45044697 ATGCCTATAATAGTTCAATACAGTAGCAAAT-AAA
1 ATGCTTATAACAGATCAATTCAGTAGCAAATCAAA
45044731 ATGCTTATAACAGATCAATTCAGTAGCAAA
1 ATGCTTATAACAGATCAATTCAGTAGCAAA
45044761 AGTCATGCTT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
33 1 0.02
34 46 0.92
35 3 0.06
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (35 bp):
ATGCTTATAACAGATCAATTCAGTAGCAAATCAAA
Found at i:45045157 original size:28 final size:27
Alignment explanation
Indices: 45045126--45045214 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 27
45045116 CAAAATTGTA
45045126 AAAATCTAAAAAATAGGGGCAGAACTAT
1 AAAATCTAAAAAATAGGGGCA-AACTAT
* *
45045154 AAAATTTAAAAAATATGGGCAAAACTAT
1 AAAATCTAAAAAATAGGGGC-AAACTAT
*
45045182 AAAATCTAGAAAACAT-GGGCCAAACTAT
1 AAAATCTA-AAAA-ATAGGGGCAAACTAT
45045210 AAAAT
1 AAAAT
45045215 ATGGAAAATA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
28 43 0.81
29 8 0.15
30 2 0.04
ACGTcount: A:0.55, C:0.11, G:0.13, T:0.20
Consensus pattern (27 bp):
AAAATCTAAAAAATAGGGGCAAACTAT
Found at i:45048890 original size:31 final size:31
Alignment explanation
Indices: 45048855--45048915 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
45048845 ATGTGTATGG
45048855 TTAAATCAAAATTAAAGTTTCAAGTATATAT
1 TTAAATCAAAATTAAAGTTTCAAGTATATAT
* **
45048886 TTAAATCACAATTAGTGTTTCAAGTATATA
1 TTAAATCAAAATTAAAGTTTCAAGTATATA
45048916 ATTACACCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (31 bp):
TTAAATCAAAATTAAAGTTTCAAGTATATAT
Found at i:45058923 original size:20 final size:20
Alignment explanation
Indices: 45058898--45058944 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
45058888 TAGTAAAATA
*
45058898 TTTTCTAGAAAATGATTTAT
1 TTTTCTAGAAAATGATTTAC
45058918 TTTTCT-GAAAATGATTTAC
1 TTTTCTAGAAAATGATTTAC
45058937 TTTTCTAG
1 TTTTCTAG
45058945 TATTTGGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.51
Consensus pattern (20 bp):
TTTTCTAGAAAATGATTTAC
Found at i:45060341 original size:32 final size:32
Alignment explanation
Indices: 45060295--45060374 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
45060285 TGTCAATCAC
*
45060295 TTCAATATCCAACAAGCTT-AAAACATAATAAA
1 TTCAATATCCAACAA-ATTCAAAACATAATAAA
* * *
45060327 TTCAATATCTAACAAATTCAAGACATAATAAT
1 TTCAATATCCAACAAATTCAAAACATAATAAA
*
45060359 TTCAAAATCCAACAAA
1 TTCAATATCCAACAAA
45060375 CTAAAATTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 2 0.05
32 39 0.95
ACGTcount: A:0.53, C:0.19, G:0.03, T:0.26
Consensus pattern (32 bp):
TTCAATATCCAACAAATTCAAAACATAATAAA
Found at i:45081519 original size:24 final size:25
Alignment explanation
Indices: 45081410--45081521 Score: 92
Period size: 25 Copynumber: 4.6 Consensus size: 25
45081400 GTACATGTAT
45081410 GCTCATACGAGC-GATAAAT-GGTAA
1 GCTCATACGAGCTGA-AAATCGGTAA
* *
45081434 GTTTC-TCCGAGCTGAATAA-CGGTAA
1 G-CTCATACGAGCTGAA-AATCGGTAA
** *
45081459 GCTCATACGAGCTGTGAATTGGTAA
1 GCTCATACGAGCTGAAAATCGGTAA
*
45081484 GCTC-TCAAGAGCT-AAAATCGGTAA
1 GCTCAT-ACGAGCTGAAAATCGGTAA
45081508 GCTCATACGAGCTG
1 GCTCATACGAGCTG
45081522 TGGTGTGTCC
Statistics
Matches: 67, Mismatches: 12, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
24 31 0.46
25 36 0.54
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTGAAAATCGGTAA
Found at i:45088367 original size:24 final size:24
Alignment explanation
Indices: 45088335--45088381 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
45088325 ATAAGCTGTG
45088335 AATTGGTAAGCTC-TCACGAGCTGA
1 AATTGGTAAGCTCAT-ACGAGCTGA
45088359 AATTGGTAAGCTCATACGAGCTG
1 AATTGGTAAGCTCATACGAGCTG
45088382 TGGTGTGCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (24 bp):
AATTGGTAAGCTCATACGAGCTGA
Found at i:45089168 original size:13 final size:13
Alignment explanation
Indices: 45089150--45089174 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45089140 TAAGTTATAT
45089150 ATGTGAAAATTTC
1 ATGTGAAAATTTC
45089163 ATGTGAAAATTT
1 ATGTGAAAATTT
45089175 GATAGTTTGA
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:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (13 bp):
ATGTGAAAATTTC
Found at i:45096458 original size:10 final size:10
Alignment explanation
Indices: 45096443--45096549 Score: 56
Period size: 9 Copynumber: 11.4 Consensus size: 10
45096433 CAAGATATGT
45096443 ATTTTTATTA
1 ATTTTTATTA
45096453 ATTTTT-TT-
1 ATTTTTATTA
*
45096461 ATATATTATTA
1 AT-TTTTATTA
45096472 ATATTTT-TTGA
1 AT-TTTTATT-A
*
45096483 A-TTTT-TGA
1 ATTTTTATTA
45096491 ATTTTT-TTA
1 ATTTTTATTA
*
45096500 CA-TATT-T-A
1 -ATTTTTATTA
45096508 ATTTTTA-TA
1 ATTTTTATTA
*
45096517 ATATTTATTA
1 ATTTTTATTA
*
45096527 ATTTTTAATA
1 ATTTTTATTA
45096537 ATTTTTA-TA
1 ATTTTTATTA
45096546 ATTT
1 ATTT
45096550 AAAAAAAAAG
Statistics
Matches: 78, Mismatches: 9, Indels: 21
0.72 0.08 0.19
Matches are distributed among these distances:
7 1 0.01
8 8 0.10
9 33 0.42
10 28 0.36
11 8 0.10
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (10 bp):
ATTTTTATTA
Found at i:45096471 original size:19 final size:18
Alignment explanation
Indices: 45096447--45096532 Score: 81
Period size: 19 Copynumber: 4.7 Consensus size: 18
45096437 ATATGTATTT
45096447 TTATTAATTTTTTTATATA
1 TTATTAATTTTTTTA-ATA
45096466 TTATTAATATTTTTTGAAT-
1 TTATTAAT-TTTTTT-AATA
45096485 TT-TTGAATTTTTTTACATA
1 TTATT-AATTTTTTTA-ATA
*
45096504 -T-TTAATTTTTATAATA
1 TTATTAATTTTTTTAATA
45096520 TTTATTAATTTTT
1 -TTATTAATTTTT
45096533 AATAATTTTT
Statistics
Matches: 58, Mismatches: 1, Indels: 16
0.77 0.01 0.21
Matches are distributed among these distances:
16 3 0.05
17 10 0.17
18 14 0.24
19 22 0.38
20 8 0.14
21 1 0.02
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.66
Consensus pattern (18 bp):
TTATTAATTTTTTTAATA
Found at i:45096512 original size:16 final size:16
Alignment explanation
Indices: 45096490--45096523 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
45096480 TGAATTTTTG
*
45096490 AATTTTTTTACATATTT
1 AATTTTTATA-ATATTT
45096507 AATTTTTATAATATTT
1 AATTTTTATAATATTT
45096523 A
1 A
45096524 TTAATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTTTTATAATATTT
Found at i:45096523 original size:9 final size:9
Alignment explanation
Indices: 45096506--45096549 Score: 61
Period size: 9 Copynumber: 4.7 Consensus size: 9
45096496 TTTACATATT
45096506 TAATTTTTA
1 TAATTTTTA
*
45096515 TAATATTTA
1 TAATTTTTA
45096524 TTAATTTTTAA
1 -TAATTTTT-A
45096535 TAATTTTTA
1 TAATTTTTA
45096544 TAATTT
1 TAATTT
45096550 AAAAAAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 15 0.48
10 15 0.48
11 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TAATTTTTA
Found at i:45096525 original size:20 final size:21
Alignment explanation
Indices: 45096502--45096544 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
45096492 TTTTTTTACA
45096502 TATTTAATTTTT-ATAATATT
1 TATTTAATTTTTAATAATATT
*
45096522 TA-TTAATTTTTAATAATTTT
1 TATTTAATTTTTAATAATATT
45096542 TAT
1 TAT
45096545 AATTTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTTAATTTTTAATAATATT
Found at i:45096533 original size:19 final size:19
Alignment explanation
Indices: 45096446--45096549 Score: 69
Period size: 19 Copynumber: 5.6 Consensus size: 19
45096436 GATATGTATT
*
45096446 TTTATTAATTTTT-TTATA
1 TTTATTAATTTTTATAATA
*
45096464 TATTATTAATATTTTTTGAAT-
1 T-TTATTAAT-TTTTAT-AATA
* *
45096485 TTT-TGAATTTTTTTACATA
1 TTTATTAATTTTTATA-ATA
45096504 --T-TTAATTTTTATAATA
1 TTTATTAATTTTTATAATA
*
45096520 TTTATTAATTTTTAATAATT
1 TTTATTAATTTTT-ATAATA
45096540 TTTA-TAATTT
1 TTTATTAATTT
45096550 AAAAAAAAAG
Statistics
Matches: 71, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
16 3 0.04
17 12 0.17
18 10 0.14
19 27 0.38
20 15 0.21
21 2 0.03
22 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTATTAATTTTTATAATA
Found at i:45096631 original size:32 final size:32
Alignment explanation
Indices: 45096576--45096637 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
45096566 ACTCATCTTG
*
45096576 AATGAATCTAGACAAACGGTTGTCAAGATTTA
1 AATGAATCTAGACAAACGATTGTCAAGATTTA
* ** *
45096608 AATGAATCTGGACAAATTATTGTCCAGATT
1 AATGAATCTAGACAAACGATTGTCAAGATT
45096638 CATTCTAGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.31
Consensus pattern (32 bp):
AATGAATCTAGACAAACGATTGTCAAGATTTA
Found at i:45097975 original size:17 final size:16
Alignment explanation
Indices: 45097953--45098009 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
45097943 ATAGATTAAT
45097953 TTATATTTTATATATCA
1 TTATATTTTAT-TATCA
**
45097970 TTATATTAAATTAATCA
1 TTATATTTTATT-ATCA
*
45097987 -AATATTTTATGTATCA
1 TTATATTTTAT-TATCA
45098003 TTATATT
1 TTATATT
45098010 AAATTATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (16 bp):
TTATATTTTATTATCA
Found at i:45097992 original size:33 final size:33
Alignment explanation
Indices: 45097955--45098044 Score: 121
Period size: 33 Copynumber: 2.8 Consensus size: 33
45097945 AGATTAATTT
45097955 ATATTTTATATATCATTATATTAAATTAATCAA
1 ATATTTTATATATCATTATATTAAATTAATCAA
* * *
45097988 ATATTTTATGTATCATTATATTAAATTATTTAA
1 ATATTTTATATATCATTATATTAAATTAATCAA
* *
45098021 ATA--TAATTTATCATTATATTAAAT
1 ATATTTTATATATCATTATATTAAAT
45098045 CATTTAAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
31 19 0.37
33 33 0.63
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (33 bp):
ATATTTTATATATCATTATATTAAATTAATCAA
Found at i:45098036 original size:31 final size:32
Alignment explanation
Indices: 45097965--45098053 Score: 117
Period size: 31 Copynumber: 2.8 Consensus size: 32
45097955 ATATTTTATA
* * *
45097965 TATCATTATATTAAATTAATCAAATATTTTATG
1 TATCATTATATTAAATTATTTAAATA-TTAATG
*
45097998 TATCATTATATTAAATTATTTAAATA-TAATT
1 TATCATTATATTAAATTATTTAAATATTAATG
*
45098029 TATCATTATATTAAATCATTTAAAT
1 TATCATTATATTAAATTATTTAAAT
45098054 TTAGTTCATT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
31 27 0.53
33 24 0.47
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (32 bp):
TATCATTATATTAAATTATTTAAATATTAATG
Found at i:45103040 original size:14 final size:15
Alignment explanation
Indices: 45103004--45103041 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
45102994 TAAAAATTAA
45103004 AAAAATTAAATGATG
1 AAAAATTAAATGATG
*
45103019 AGAAATTAAATGAT-
1 AAAAATTAAATGATG
45103033 AAAAATTAA
1 AAAAATTAA
45103042 GTATTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (15 bp):
AAAAATTAAATGATG
Found at i:45103273 original size:14 final size:15
Alignment explanation
Indices: 45103230--45103286 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 15
45103220 TGATAAAATG
*
45103230 AAAAATTAAGTGTTA
1 AAAAATTAAGTATTA
*
45103245 AAAAA--AACTAGTTA
1 AAAAATTAAGTA-TTA
45103259 AAAAATT-AGTATTA
1 AAAAATTAAGTATTA
*
45103273 AAAATTTAAGTATT
1 AAAAATTAAGTATT
45103287 GAATTTAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 3 0.09
14 17 0.50
15 14 0.41
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (15 bp):
AAAAATTAAGTATTA
Found at i:45115895 original size:15 final size:15
Alignment explanation
Indices: 45115858--45115905 Score: 60
Period size: 17 Copynumber: 3.0 Consensus size: 15
45115848 ATTAATTTCT
*
45115858 TAAAAAATTCAAAACA
1 TAAAAAATTTAAAA-A
45115874 TATAAAAATATTAAAAA
1 TA-AAAAAT-TTAAAAA
45115891 TAAAAAATTTAAAAA
1 TAAAAAATTTAAAAA
45115906 ATTTTAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.24
16 8 0.28
17 9 0.31
18 5 0.17
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (15 bp):
TAAAAAATTTAAAAA
Found at i:45117479 original size:17 final size:18
Alignment explanation
Indices: 45117457--45117499 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
45117447 TTTTATTGTT
*
45117457 TATTATAAT-AATTTTTA
1 TATTATAATAAATGTTTA
45117474 TATTAT-ATAAATGTTTA
1 TATTATAATAAATGTTTA
*
45117491 TATTTTAAT
1 TATTATAAT
45117500 TTATTGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 18 0.82
18 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TATTATAATAAATGTTTA
Found at i:45117522 original size:13 final size:13
Alignment explanation
Indices: 45117506--45117546 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
45117496 TAATTTATTG
45117506 TTAATTTTTAGAT
1 TTAATTTTTAGAT
45117519 TTAATTTTTAGAT
1 TTAATTTTTAGAT
*
45117532 TTAATATTTAAGAT
1 TTAAT-TTTTAGAT
45117546 T
1 T
45117547 ATATTTTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 18 0.69
14 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (13 bp):
TTAATTTTTAGAT
Found at i:45117693 original size:144 final size:146
Alignment explanation
Indices: 45117507--45117825 Score: 470
Period size: 144 Copynumber: 2.2 Consensus size: 146
45117497 AATTTATTGT
*
45117507 TAAT-TTTTAGATTTAATTTTTAGATTTAATATTTAAGATTATATTTTTGTTTGTAAAGATTATA
1 TAATATTTTACATTTAATTTTTAGATTTAATATTTAAGATTATATTTTTGTTTGTAAAGATTATA
45117571 TTTGTGTTTAA-TGTGTAGGGATAGA-TTAAAATA-TTTCTAATGTA-TG-TTTCTTGAGTTTGT
66 TTTGTGTTTAAGT-TGTAGGGATAGACTT-AAATAGTTT-TAATGTATTGTTTTCTTGAGTTTGT
45117631 AATAATAATTTGTATATTA
128 AATAATAATTTGTATATTA
* * *
45117650 TAATATTTTACATATAATATTTAGATTTAATTTTTAAGATTATATTTTTGTTTGTAAAGATTATA
1 TAATATTTTACATTTAATTTTTAGATTTAATATTTAAGATTATATTTTTGTTTGTAAAGATTATA
** * *
45117715 TTTGTGTTTAAGTTGTAGGGATAGACTTGGATAGTTTTAATGTATTGTTTTTTTTTTAGTTTGTA
66 TTTGTGTTTAAGTTGTAGGGATAGACTTAAATAGTTTTAATGTATTG--TTTTCTTGAGTTTGTA
45117780 ATAATAATTTGTATATTA
129 ATAATAATTTGTATATTA
45117798 TAATATTTTACATTTAATTTTTAAGATT
1 TAATATTTTACATTTAATTTTT-AGATT
45117826 ATAAAAATTA
Statistics
Matches: 157, Mismatches: 10, Indels: 12
0.88 0.06 0.07
Matches are distributed among these distances:
143 4 0.03
144 89 0.57
145 8 0.05
148 51 0.32
149 5 0.03
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.54
Consensus pattern (146 bp):
TAATATTTTACATTTAATTTTTAGATTTAATATTTAAGATTATATTTTTGTTTGTAAAGATTATA
TTTGTGTTTAAGTTGTAGGGATAGACTTAAATAGTTTTAATGTATTGTTTTCTTGAGTTTGTAAT
AATAATTTGTATATTA
Found at i:45120266 original size:190 final size:190
Alignment explanation
Indices: 45119929--45120308 Score: 535
Period size: 190 Copynumber: 2.0 Consensus size: 190
45119919 CTAGCACATA
* ** ** *
45119929 CTCTTACATCACGACTAACCACCACTGAAGTTTGTCGTATGATGCATCCCAATATCCATACAACT
1 CTCTTACATCACGACTAACCACCACTGAAATTCATCGTACAACGCATCCCAATATCCATACAACT
* *
45119994 CTTCCATCGCAATCTGTTTAGCCCACCATGCTTCCCTATATGACACTCAGTATTGAAATCGGGCT
66 ATTCCATCGCAATCTGTTTAGCCCACCATGCTTCCCTATATGACACTCAGTATTAAAATCGGGCT
*** * **
45120059 TGCATGTCGGTAATCAAGACCGATATAGGAATGGTGGGCATGTCTTTCACCAATGGCATG
131 TGCATGTCAACAATCAAGACCGATACAGGAATGGTAAGCATGTCTTTCACCAATGGCATG
* * * * * *
45120119 CTCTTGCATCACGACTAACCACCCCTGAAATTCATTGTACAACGCATGCCATTCTCCATACAACT
1 CTCTTACATCACGACTAACCACCACTGAAATTCATCGTACAACGCATCCCAATATCCATACAACT
* * * *
45120184 ATTCTATCGCAATCTGTTTAGCCCACCATGCTTTCCTGTATGACACTCTGTATTAAAATCGGGCT
66 ATTCCATCGCAATCTGTTTAGCCCACCATGCTTCCCTATATGACACTCAGTATTAAAATCGGGCT
*
45120249 TGCATGTCAACAATCAAGACCGATACAGGAATGGTAAGCATGTCTTTCACCAGTGGCATG
131 TGCATGTCAACAATCAAGACCGATACAGGAATGGTAAGCATGTCTTTCACCAATGGCATG
45120309 ATGTAGTTAC
Statistics
Matches: 165, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
190 165 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (190 bp):
CTCTTACATCACGACTAACCACCACTGAAATTCATCGTACAACGCATCCCAATATCCATACAACT
ATTCCATCGCAATCTGTTTAGCCCACCATGCTTCCCTATATGACACTCAGTATTAAAATCGGGCT
TGCATGTCAACAATCAAGACCGATACAGGAATGGTAAGCATGTCTTTCACCAATGGCATG
Found at i:45121539 original size:23 final size:22
Alignment explanation
Indices: 45121501--45121561 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 22
45121491 TATAAAATAA
*
45121501 ATTAAAAATAATATATATCGGCTTCT
1 ATTAAAAA-AATATATA---GCTCCT
*
45121527 ATTACAAAAATAT-TAGCTCCT
1 ATTAAAAAAATATATAGCTCCT
45121548 ATTAAAAAAATATA
1 ATTAAAAAAATATA
45121562 GCAACAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 17 0.55
24 2 0.06
25 5 0.16
26 7 0.23
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.34
Consensus pattern (22 bp):
ATTAAAAAAATATATAGCTCCT
Found at i:45121861 original size:29 final size:29
Alignment explanation
Indices: 45121816--45121879 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
45121806 TTTTAACTCT
*
45121816 TTTTTTTTCTCCCCTTCTAC-TAAACAGA
1 TTTTTTTTCTCCCCTTCAACATAAACAGA
* * *
45121844 TTATTTTTTCTTCTCTTCAACATAAATAGA
1 TT-TTTTTTCTCCCCTTCAACATAAACAGA
45121874 TTTTTT
1 TTTTTT
45121880 GCTGAAGGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 2 0.07
29 19 0.63
30 9 0.30
ACGTcount: A:0.23, C:0.20, G:0.03, T:0.53
Consensus pattern (29 bp):
TTTTTTTTCTCCCCTTCAACATAAACAGA
Found at i:45122423 original size:26 final size:25
Alignment explanation
Indices: 45122366--45122429 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 25
45122356 AGCTCATTCC
45122366 CGTAATTAATTTTCCATATCCCATTT
1 CGTAATTAATTTTCCA-ATCCCATTT
*
45122392 CTGTAATTAATTTTCTC-ATCCTATTTT
1 C-GTAATTAATTTTC-CAATCCCA-TTT
45122419 CGTAATTAATT
1 CGTAATTAATT
45122430 AAATTTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
26 16 0.47
27 17 0.50
28 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.05, T:0.50
Consensus pattern (25 bp):
CGTAATTAATTTTCCAATCCCATTT
Found at i:45123012 original size:38 final size:38
Alignment explanation
Indices: 45122945--45123021 Score: 113
Period size: 38 Copynumber: 2.0 Consensus size: 38
45122935 CCGAATATAA
*
45122945 TAAATATATATTTTTTATTTTTATTTTTAAAATACTTT
1 TAAATATATATTTTTTATTTTTATTTTTAAAATAATTT
45122983 TAAA-ATA-ATTTTTTATTTTTTTATTTTTAAAATAATTT
1 TAAATATATATTTTTTA--TTTTTATTTTTAAAATAATTT
45123021 T
1 T
45123022 TTAATGTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
36 8 0.22
37 3 0.08
38 25 0.69
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (38 bp):
TAAATATATATTTTTTATTTTTATTTTTAAAATAATTT
Found at i:45123031 original size:26 final size:27
Alignment explanation
Indices: 45122980--45123041 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
45122970 TTTAAAATAC
* *
45122980 TTTTAAAATAATTTTTTATTTTTTTAT
1 TTTTAAAATAATTTTTTATATGTTTAT
45123007 TTTTAAAATAATTTTTTA-ATGTTTAT
1 TTTTAAAATAATTTTTTATATGTTTAT
*
45123033 TTTAAAAAT
1 TTTTAAAAT
45123042 GGGCCGGGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 14 0.44
27 18 0.56
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTTAAAATAATTTTTTATATGTTTAT
Found at i:45127294 original size:87 final size:87
Alignment explanation
Indices: 45127140--45127326 Score: 238
Period size: 87 Copynumber: 2.1 Consensus size: 87
45127130 ATTGAATTTT
* * *
45127140 AAGGAATA-CCTTTGTGGCAAAACTTAGGAAAGGTAAGCCAATGTGATGAACCTTTGAAAGGAAA
1 AAGGAA-AGCCTTTATGGAAAAACTTAGGAAAGATAAGCCAATGTGATGAACCTTTGAAAGGAAA
**
45127204 TGCCTCTATGTTAAAACTCTGGA
65 TGCCTCTATGGAAAAACTCTGGA
*
45127227 CAA-GAAAGCCTTTATGGAAAAACTTA-GAAACGATAAGCCTATGT-AGTGAACCTTTGAAAGGA
1 -AAGGAAAGCCTTTATGGAAAAACTTAGGAAA-GATAAGCCAATGTGA-TGAACCTTTGAAAGGA
* *
45127289 AATGCCTTTATGGAAAAACTTTGGA
63 AATGCCTCTATGGAAAAACTCTGGA
45127314 AAGGAAAGCCTTT
1 AAGGAAAGCCTTT
45127327 GTGGCGAGTA
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
86 8 0.09
87 77 0.89
88 2 0.02
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (87 bp):
AAGGAAAGCCTTTATGGAAAAACTTAGGAAAGATAAGCCAATGTGATGAACCTTTGAAAGGAAAT
GCCTCTATGGAAAAACTCTGGA
Found at i:45127310 original size:29 final size:28
Alignment explanation
Indices: 45127191--45127326 Score: 103
Period size: 29 Copynumber: 4.7 Consensus size: 28
45127181 TGTGATGAAC
* **
45127191 CTTTGAAAGGAAATGCCTCTATGTTAAAA
1 CTTTGAAAGGAAA-GCCTTTATGGAAAAA
*
45127220 CTCTGGACAA-GAAAGCCTTTATGGAAAAA
1 CT-TTGA-AAGGAAAGCCTTTATGGAAAAA
* * * * * ** *
45127249 CTTAGAAACGATAAGCCTATGTAGTGAAC
1 CTTTGAAAGGA-AAGCCTTTATGGAAAAA
45127278 CTTTGAAAGGAAATGCCTTTATGGAAAAA
1 CTTTGAAAGGAAA-GCCTTTATGGAAAAA
45127307 CTTTGGAAAGGAAAGCCTTT
1 CTTT-GAAAGGAAAGCCTTT
45127327 GTGGCGAGTA
Statistics
Matches: 82, Mismatches: 19, Indels: 12
0.73 0.17 0.11
Matches are distributed among these distances:
27 2 0.02
28 7 0.09
29 55 0.67
30 16 0.20
31 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (28 bp):
CTTTGAAAGGAAAGCCTTTATGGAAAAA
Found at i:45129077 original size:26 final size:26
Alignment explanation
Indices: 45129041--45129103 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
45129031 TTCAAATTCA
45129041 GGAATGCTCATACAAGCACATAAACG
1 GGAATGCTCATACAAGCACATAAACG
* * *
45129067 GGAATGCTCATACGAGTACATAAATG
1 GGAATGCTCATACAAGCACATAAACG
45129093 GGAA-GCTCATA
1 GGAATGCTCATA
45129104 TGAGCTATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 7 0.21
26 27 0.79
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (26 bp):
GGAATGCTCATACAAGCACATAAACG
Found at i:45129169 original size:23 final size:24
Alignment explanation
Indices: 45129091--45129199 Score: 69
Period size: 25 Copynumber: 4.5 Consensus size: 24
45129081 AGTACATAAA
* * * *
45129091 TGGGAAGCTCATATGAGCTATGTAA
1 TGGGAAGCTCATACGAGCCA-ATAT
45129116 TGGGAAGCTCATACGAGCCAATAT
1 TGGGAAGCTCATACGAGCCAATAT
* * *
45129140 CGAGAAGTTCA-AGCGAG-CAATAT
1 TGGGAAGCTCATA-CGAGCCAATAT
** * *
45129163 TGGGAAGCTCCGAAGAGCCATTAAT
1 TGGGAAGCTCATACGAGCCAAT-AT
*
45129188 TGGAAAGCTCAT
1 TGGGAAGCTCAT
45129200 GAAGAGCCTT
Statistics
Matches: 64, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
23 17 0.27
24 18 0.28
25 29 0.45
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (24 bp):
TGGGAAGCTCATACGAGCCAATAT
Found at i:45129195 original size:25 final size:26
Alignment explanation
Indices: 45129161--45129212 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
45129151 AGCGAGCAAT
*
45129161 ATTGGGAAGCTC-CGAAGAGCCATTA
1 ATTGGAAAGCTCACGAAGAGCCATTA
* *
45129186 ATTGGAAAGCTCATGAAGAGCCTTTA
1 ATTGGAAAGCTCACGAAGAGCCATTA
45129212 A
1 A
45129213 ACGGTAAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (26 bp):
ATTGGAAAGCTCACGAAGAGCCATTA
Found at i:45129221 original size:26 final size:25
Alignment explanation
Indices: 45129167--45129234 Score: 73
Period size: 26 Copynumber: 2.7 Consensus size: 25
45129157 CAATATTGGG
* **
45129167 AAGCTCCGAAGAGCCATTAATTGGA
1 AAGCTCTGAAGAGCCATTAAACGGA
* *
45129192 AAGCTCATGAAGAGCCTTTAAACGGT
1 AAGCTC-TGAAGAGCCATTAAACGGA
*
45129218 AAGCTCTGAAAAGCCAT
1 AAGCTCTGAAGAGCCAT
45129235 ATATCGGGAC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
25 15 0.43
26 20 0.57
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (25 bp):
AAGCTCTGAAGAGCCATTAAACGGA
Found at i:45132411 original size:27 final size:27
Alignment explanation
Indices: 45132381--45132449 Score: 68
Period size: 31 Copynumber: 2.4 Consensus size: 27
45132371 CAAAGTTTCA
45132381 TATGTATAATTACA-TAAAATAAAAAAT
1 TATGTATAATTACATTAAAAT-AAAAAT
* *
45132408 TATGTATCAAATTGTACATTAAACTAAAATT
1 TATGTAT--AA-T-TACATTAAAATAAAAAT
45132439 TATGTATAATT
1 TATGTATAATT
45132450 TTGATATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
27 8 0.23
28 1 0.03
29 4 0.11
30 1 0.03
31 16 0.46
32 5 0.14
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (27 bp):
TATGTATAATTACATTAAAATAAAAAT
Found at i:45135086 original size:20 final size:21
Alignment explanation
Indices: 45135046--45135086 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
45135036 CTATAAACCT
*
45135046 TAAACCTCAATCTCCAAGCCC
1 TAAACCTCAAACTCCAAGCCC
*
45135067 TAAACCT-AAACTCTAAGCCC
1 TAAACCTCAAACTCCAAGCCC
45135087 AAATCACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.37, C:0.39, G:0.05, T:0.20
Consensus pattern (21 bp):
TAAACCTCAAACTCCAAGCCC
Found at i:45135898 original size:133 final size:134
Alignment explanation
Indices: 45135435--45135847 Score: 489
Period size: 133 Copynumber: 3.1 Consensus size: 134
45135425 GAACCGTTTC
* * * * *
45135435 CGGCATTTTTTAACATTTCGCCACTAAAG-CATAAAAAGGAAACAACAAAACGGTACCGTTTTGC
1 CGGCGTTTTTTAA-AATGCGCCACTAAAGAAAT-AAAATGAAACAACAAAACGGTACCGTTTTGC
* * *
45135499 TCAAAATTTTTCCTCAAATTAGATT-TCTTTACCGGCGTTTCTCCA-ATAACGCCACTATATCAC
64 TCAAATTTTTTCCTCAAATTAG-TTATCTTTACCGGCGTTTCT-CAGAAAACGCCGCTATATC-C
*
45135562 AA-TATTTG
126 AATTTTTTG
* * * *
45135570 CGGCGTTTTTTACAATGCGCCACTAAAGAAATAAAATGAAGCAATAAAACGGTAGCGTTTTG-TC
1 CGGCGTTTTTTAAAATGCGCCACTAAAGAAATAAAATGAAACAACAAAACGGTACCGTTTTGCT-
* * * * * *
45135634 CAAATTTTTTCCTCAAATTAGATATCTTTATCGGCGTTTCCCTGAAAACGCCGCT-GATGC-ATT
65 CAAATTTTTTCCTCAAATTAGTTATCTTTACCGGCGTTTCTCAGAAAACGCCGCTATATCCAATT
*
45135697 CTTTTC
130 -TTTTG
*
45135703 CGGCGTTTTTTAAAATGCGCCACTAAAGAAATAAAATGAAACAACAAAACGGTACTGTTTTGCTC
1 CGGCGTTTTTTAAAATGCGCCACTAAAGAAATAAAATGAAACAACAAAACGGTACCGTTTTGCTC
* * *
45135768 AGATTTTTTCCTCAAATTTGTTATCGTTACCGGCGTTTCTCAGAAAACGCCGCTATATTCCAATT
66 AAATTTTTTCCTCAAATTAGTTATCTTTACCGGCGTTTCTCAGAAAACGCCGCTATA-TCCAATT
45135833 TTTTG
130 TTTTG
45135838 CGGCGTTTTT
1 CGGCGTTTTT
45135848 GGGGAAGCGC
Statistics
Matches: 233, Mismatches: 35, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
131 1 0.00
132 2 0.01
133 113 0.48
134 85 0.36
135 29 0.12
136 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (134 bp):
CGGCGTTTTTTAAAATGCGCCACTAAAGAAATAAAATGAAACAACAAAACGGTACCGTTTTGCTC
AAATTTTTTCCTCAAATTAGTTATCTTTACCGGCGTTTCTCAGAAAACGCCGCTATATCCAATTT
TTTG
Found at i:45136754 original size:27 final size:29
Alignment explanation
Indices: 45136666--45136763 Score: 82
Period size: 28 Copynumber: 3.5 Consensus size: 29
45136656 AATGGTTGAA
* *
45136666 ATTATATTTATATTGAAGAATATATTATAA-
1 ATTATATTTATATT-AAAAAT-TATTAAAAT
**
45136696 ATTA-AAAT-TATTAAAAATTATTAAAAT
1 ATTATATTTATATTAAAAATTATTAAAAT
*
45136723 -TT-TATTTATATTAAGAAATTGTTAAAA-
1 ATTATATTTATATTAA-AAATTATTAAAAT
45136750 ATTATATTTATATT
1 ATTATATTTATATT
45136764 GATTAATAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
26 11 0.20
27 11 0.20
28 17 0.31
29 12 0.22
30 4 0.07
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (29 bp):
ATTATATTTATATTAAAAATTATTAAAAT
Done.