Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 189 of 333
Found at i:62040174 original size:96 final size:94
Alignment explanation
Indices: 62040070--62040392 Score: 529
Period size: 96 Copynumber: 3.4 Consensus size: 94
62040060 ATTTAGGATT
62040070 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
62040135 AAAGTGTATATATGTGATAAGGCCTAATGGC
64 AAAGTGTATATATGTGATAAGGCCTAATGGC
62040166 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
62040231 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTG--TATATATGTGATAAGGCCTAATGGC
*
62040262 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * *
62040327 AGTGTATATATGTGACAGGGCCGAGTGGC
66 AGTGTATATATGTGATAAGGCCTAATGGC
* * * *
62040356 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
62040393 TCCCGAAGGG
Statistics
Matches: 216, Mismatches: 9, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
94 101 0.47
96 115 0.53
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCTAATGGC
Found at i:62040217 original size:143 final size:143
Alignment explanation
Indices: 62040070--62040392 Score: 560
Period size: 143 Copynumber: 2.3 Consensus size: 143
62040060 ATTTAGGATT
62040070 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
62040135 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
66 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAC
*
62040200 AAGGCCTAATGGC
131 AAGGCCGAATGGC
62040213 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
62040278 AAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAC
66 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAC
* *
62040343 AGGGCCGAGTGGC
131 AAGGCCGAATGGC
* * *
62040356 CAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
62040393 TCCCGAAGGG
Statistics
Matches: 172, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
141 10 0.06
142 1 0.01
143 161 0.94
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAC
AAGGCCGAATGGC
Found at i:62040567 original size:37 final size:37
Alignment explanation
Indices: 62040511--62040589 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
62040501 CCGAGCTCTA
* * *
62040511 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
62040548 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
62040585 AAGAC
1 AAGAC
62040590 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:62042025 original size:5 final size:6
Alignment explanation
Indices: 62042010--62042034 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
62042000 TTTAAATTTA
62042010 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
62042035 CTAAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:62047106 original size:36 final size:36
Alignment explanation
Indices: 62046911--62047112 Score: 200
Period size: 35 Copynumber: 5.7 Consensus size: 36
62046901 ACGACGTTTA
* * * *
62046911 AAAAAGATTAGGATAGACCCT-TCTAAGACAACCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* * * *
62046946 AAAAACGTTGGGATATACC-CGTCTAAGACAACCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* **
62046981 AAAAATGTTGGGATAGACCTTGTCTAAGGC--TTTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* *
62047015 AAAAAAGGTTGGGATAGAGC-TGTCTAAGG-AACCCCT
1 -AAAAAGGTTGGGATAGACCTTGTCTAAGGCAA-CCTT
* *
62047051 AAAAAGGTTGGGACAGACCTTGTCTAAGGCAAACTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
*
62047087 AAATAGGTTGGGATAGACCTTGTCTA
1 AAAAAGGTTGGGATAGACCTTGTCTA
62047113 TGTCAACACC
Statistics
Matches: 137, Mismatches: 22, Indels: 15
0.79 0.13 0.09
Matches are distributed among these distances:
34 11 0.08
35 80 0.58
36 44 0.32
37 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (36 bp):
AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
Found at i:62047768 original size:140 final size:138
Alignment explanation
Indices: 62047518--62047809 Score: 415
Period size: 140 Copynumber: 2.1 Consensus size: 138
62047508 TTTAGTGCTG
* * * *
62047518 GCCCATAAGTGTCAGCATAGTATTGGATAAGCTGACTCTTATTTAAGCGTTGCCTTAGCATGTAT
1 GCCCAAAAGTGTCAGCATAGTATTGGAAAAGCCGACTCTTATTTAAGCGTTGCCTTAGCATGCAT
*
62047583 ATCCCAATCTTTATACAAAGAGTTGGCCAAAGCGTATGTCAGCAAGTCTATCCCAACACTAAGGA
66 ATCCCAACCTTTATACAAAGAGTTGGCCAAAGCGTATGTCAGCAAGTCTATCCCAACACTAA-GA
**
62047648 AAA-TGTTG
130 AAAGTGTCA
* * * * *
62047656 GCCTAAAAGTGTCGGCATAGTGTTGGACAAAGCCGACTCTTATTTAAGTGTTGCCTTACGTATGC
1 GCCCAAAAGTGTCAGCATAGTATTGGA-AAAGCCGACTCTTATTTAAGCGTTGCCTTA-GCATGC
* * *
62047721 ATATCCCAACCTTTATACAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCTAACACTTAG
64 ATATCCCAACCTTTATACAAAGAGTTGGCCAAAGCGTATGTCAGCAAGTCTATCCCAACACTAAG
62047786 AAAAGTGTCA
129 AAAAGTGTCA
62047796 GCCCAAAAGTGTCA
1 GCCCAAAAGTGTCA
62047810 TCTTAGGACT
Statistics
Matches: 134, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
138 23 0.17
139 32 0.24
140 79 0.59
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (138 bp):
GCCCAAAAGTGTCAGCATAGTATTGGAAAAGCCGACTCTTATTTAAGCGTTGCCTTAGCATGCAT
ATCCCAACCTTTATACAAAGAGTTGGCCAAAGCGTATGTCAGCAAGTCTATCCCAACACTAAGAA
AAGTGTCA
Found at i:62050614 original size:29 final size:27
Alignment explanation
Indices: 62050581--62050643 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
62050571 AATCCTCCAT
62050581 AACACACCAGTATAAT-ATAGCCTCCCA
1 AACACACCAGTAT-ATCATAGCCTCCCA
* *
62050608 AACACACCGGTATATCATATCCTCCCA
1 AACACACCAGTATATCATAGCCTCCCA
62050635 AACACACCA
1 AACACACCA
62050644 ATAAGGCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 2 0.06
27 30 0.94
ACGTcount: A:0.40, C:0.37, G:0.06, T:0.17
Consensus pattern (27 bp):
AACACACCAGTATATCATAGCCTCCCA
Found at i:62051182 original size:17 final size:18
Alignment explanation
Indices: 62051152--62051185 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62051142 AATTTTTATT
*
62051152 CAATTTATTCCCTAATTC
1 CAATTTAATCCCTAATTC
62051170 CAATTTAAT-CCTAATT
1 CAATTTAATCCCTAATT
62051186 AACTCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (18 bp):
CAATTTAATCCCTAATTC
Found at i:62062137 original size:40 final size:40
Alignment explanation
Indices: 62062037--62062299 Score: 365
Period size: 40 Copynumber: 6.7 Consensus size: 40
62062027 GCTCCTCGTT
* * ** *
62062037 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
62062077 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
62062116 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
62062156 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
62062196 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * * *
62062236 CGAATGCCTTCGGAACTTAATCCGGATATT--C-ACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGAT-TTAACAAC-TCGCA
*
62062275 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
62062300 CAGCATTCAA
Statistics
Matches: 207, Mismatches: 13, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
38 20 0.10
39 43 0.21
40 142 0.69
41 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
Found at i:62068188 original size:38 final size:38
Alignment explanation
Indices: 62068137--62068452 Score: 497
Period size: 38 Copynumber: 8.3 Consensus size: 38
62068127 ATGTTCGATG
*
62068137 TATATCCGGGTTAAATCCCGCAGGCTTCTTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
62068175 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
62068213 TATCTCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
62068251 TATATCCGGCTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
62068289 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
62068327 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
*
62068367 AATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * * *
62068405 TATATCTGGGATAAATCCCGTAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
62068443 TATATTCGGG
1 TATATCCGGG
62068453 CCTTCGTGCC
Statistics
Matches: 256, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
38 216 0.84
39 10 0.04
40 30 0.12
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:62068402 original size:116 final size:115
Alignment explanation
Indices: 62068138--62068453 Score: 517
Period size: 116 Copynumber: 2.7 Consensus size: 115
62068128 TGTTCGATGT
*
62068138 ATATCCGGGTTAAATCCCGCAGGCTTCTTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
* * *
62068203 GTGCTGGTATTATCTCCGGG-TTAAATCCCGCAGGCTTCGTGCTGGTAAT
66 GTGCTGGTATTATATCCGGGCTTAAAACCCGCAGGCTTCGTGCTGGTAAA
*
62068252 ATATCCGGCTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
62068317 GTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAA
66 GTGCTGGTATTATATCCGGGCTTAAA-ACCCGCAGGCTTCGTGCTGGTAAA
* * * * *
62068368 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCTGGGATAAATCCCGTAGGCCTA
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
*
62068433 GTGCTGGTATTATATTCGGGC
66 GTGCTGGTATTATATCCGGGC
62068454 CTTCGTGCCT
Statistics
Matches: 188, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
114 82 0.44
115 5 0.03
116 101 0.54
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (115 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
GTGCTGGTATTATATCCGGGCTTAAAACCCGCAGGCTTCGTGCTGGTAAA
Found at i:62068522 original size:43 final size:43
Alignment explanation
Indices: 62068445--62068526 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
62068435 GCTGGTATTA
* **
62068445 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
62068488 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
62068527 AATGATATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.12, C:0.26, G:0.34, T:0.28
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
Found at i:62095402 original size:40 final size:40
Alignment explanation
Indices: 62095160--62095388 Score: 372
Period size: 40 Copynumber: 5.7 Consensus size: 40
62095150 TATTCGGATG
* *
62095160 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
62095200 A-AATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
62095240 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
62095280 A-AATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
62095320 ACAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
62095360 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
62095389 AGCAAGTAGC
Statistics
Matches: 176, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
39 4 0.02
40 168 0.95
41 4 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:62102746 original size:16 final size:16
Alignment explanation
Indices: 62102725--62102765 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
62102715 CTTCGGGACT
*
62102725 TATCACATTTATACAC
1 TATCACATCTATACAC
62102741 TATCACATCTATACAC
1 TATCACATCTATACAC
*
62102757 TTTCACATC
1 TATCACATC
62102766 CATCACGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (16 bp):
TATCACATCTATACAC
Found at i:62102817 original size:47 final size:47
Alignment explanation
Indices: 62102741--62103195 Score: 676
Period size: 47 Copynumber: 9.5 Consensus size: 47
62102731 ATTTATACAC
* * * * * *
62102741 TATCACATCTATACACTTTCACATCCATCACGTTGGCCACTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
*
62102788 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
* *
62102835 CATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
62102882 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
62102929 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
* *
62102978 TATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
62103027 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
*** * *
62103076 TATCACATATATATACACTAAAACATTCATCACATTGGCCATTCGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
62103125 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
* *
62103172 TATCACATATATATACATTCACAT
1 TATCACATATATACACTTTCACAT
62103196 CACAATTATC
Statistics
Matches: 378, Mismatches: 28, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 193 0.51
49 185 0.49
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
Found at i:62102960 original size:49 final size:49
Alignment explanation
Indices: 62102750--62103195 Score: 687
Period size: 49 Copynumber: 9.3 Consensus size: 49
62102740 CTATCACATC
* * * * * *
62102750 TATACACTTTCACATCCATCACGTTGGCCACTAGGCCCTGTCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
62102797 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
62102844 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
62102891 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
62102940 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
* *
62102989 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
62103038 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*** * *
62103087 TATACACTAAAACATTCATCACATTGGCCATTCGGCCTTATCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
62103134 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
62103183 TATACA--TTCACAT
1 TATACACTTTCACAT
62103196 CACAATTATC
Statistics
Matches: 371, Mismatches: 24, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 177 0.48
49 194 0.52
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (49 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
Found at i:62107794 original size:40 final size:40
Alignment explanation
Indices: 62107592--62107780 Score: 326
Period size: 40 Copynumber: 4.7 Consensus size: 40
62107582 TATTCGGATG
*
62107592 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
62107632 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
62107672 A-AATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
62107712 ACAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
62107752 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
62107781 AGCAAGTAGC
Statistics
Matches: 141, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
39 2 0.01
40 137 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:62110379 original size:21 final size:21
Alignment explanation
Indices: 62110353--62110408 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
62110343 GAAACATGGC
62110353 ACACGCCCGTGTGGAAGGGCA
1 ACACGCCCGTGTGGAAGGGCA
*
62110374 ATACGCCCGTGTGGAAGGGCA
1 ACACGCCCGTGTGGAAGGGCA
62110395 ACACGCCCGTGTGG
1 ACACGCCCGTGTGG
62110409 TCATTATAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.29, G:0.38, T:0.12
Consensus pattern (21 bp):
ACACGCCCGTGTGGAAGGGCA
Found at i:62111795 original size:48 final size:49
Alignment explanation
Indices: 62111577--62111814 Score: 179
Period size: 48 Copynumber: 4.9 Consensus size: 49
62111567 AAACATAGGG
* * * * * *
62111577 TATGATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCA
1 TATGATGTCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTA
* * *
62111626 TCA--A-GTTGATGCCATGTCCCAGACATGGTCTTACATTGACTA--TCAA
1 T-ATGATGTCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACCTCTA
* * * * * * *
62111672 AATTGAGGCCGACGCCATGTCCCAAATATGGTCTTACACT---AGCTCTCA
1 TA-TGATGTCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCT-A
* *
62111720 CATGTCTGTACCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTA
1 TATG-ATGT--CGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTA
*
62111772 TATG-TGTCGATGCCATGTCCCAGACATGGTCTTACATTGACAC
1 TATGATGTCGATGCCATGTCCCAGACATGGTCTTACACTGACAC
62111815 ATCTCGTAGC
Statistics
Matches: 149, Mismatches: 25, Indels: 31
0.73 0.12 0.15
Matches are distributed among these distances:
45 2 0.01
46 3 0.02
47 35 0.23
48 40 0.27
49 28 0.19
50 32 0.21
52 4 0.03
53 5 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (49 bp):
TATGATGTCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTA
Found at i:62111893 original size:92 final size:93
Alignment explanation
Indices: 62111781--62111950 Score: 227
Period size: 94 Copynumber: 1.8 Consensus size: 93
62111771 ATATGTGTCG
* * *
62111781 ATGCCATGTCCCAGACATGGTCTTACATTGACACATC-T-CGTAGCCGATGCATGTCCTAGACAT
1 ATGCCATGGCCCAGACATGGTCTTACACTGACAC-TCATACGTAGCCGATGCATGTCCCAGACAT
62111844 GTCTTACACTAGCTCTCGTTTCAATGCCA
65 GTCTTACACTAGCTCTCGTTTCAATGCCA
* * * * *
62111873 ATGCCATGGCCTAGATATGGTCTTACACTGGCTCTCATAATGTAGCCGATGCATGTCCCAGACAT
1 ATGCCATGGCCCAGACATGGTCTTACACTGACACTCAT-ACGTAGCCGATGCATGTCCCAGACAT
*
62111938 GTCTTATACTAGC
65 GTCTTACACTAGC
62111951 ACACAATAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
91 2 0.03
92 29 0.44
94 35 0.53
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (93 bp):
ATGCCATGGCCCAGACATGGTCTTACACTGACACTCATACGTAGCCGATGCATGTCCCAGACATG
TCTTACACTAGCTCTCGTTTCAATGCCA
Found at i:62113344 original size:6 final size:6
Alignment explanation
Indices: 62113331--62113361 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
62113321 AGGAAAATGA
62113331 TTTC-T TTTCTT TTTCTT TTTCTT TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
62113362 ATAGTAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:62118201 original size:5 final size:5
Alignment explanation
Indices: 62118163--62118197 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
62118153 ATACGTGAGT
62118163 GTGAA GTGAA GTGAA GTGAA GTGAA GTGAA G-GAA G
1 GTGAA GTGAA GTGAA GTGAA GTGAA GTGAA GTGAA G
62118198 GGAATCGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (5 bp):
GTGAA
Found at i:62120555 original size:21 final size:20
Alignment explanation
Indices: 62120518--62120556 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
62120508 ATACTTCTTA
*
62120518 TAAAATGAGGAAAAGAAACC
1 TAAAATAAGGAAAAGAAACC
*
62120538 TAAAATAATGGAATAGAAA
1 TAAAATAA-GGAAAAGAAA
62120557 AACTGATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.62, C:0.05, G:0.18, T:0.15
Consensus pattern (20 bp):
TAAAATAAGGAAAAGAAACC
Found at i:62122975 original size:18 final size:18
Alignment explanation
Indices: 62122952--62122988 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
62122942 TTATACCAGG
*
62122952 TGTGTATCCTAGCCCTTA
1 TGTGTATCCTAACCCTTA
*
62122970 TGTGTATCTTAACCCTTA
1 TGTGTATCCTAACCCTTA
62122988 T
1 T
62122989 ATGTTTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (18 bp):
TGTGTATCCTAACCCTTA
Found at i:62123145 original size:18 final size:18
Alignment explanation
Indices: 62123122--62123168 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
62123112 CGTCAGGGAG
62123122 CCCATC-TCATTTCCAATC
1 CCCATCGTC-TTTCCAATC
62123140 CCCATCGTCTTTCCAATC
1 CCCATCGTCTTTCCAATC
62123158 CCCATCGTCTT
1 CCCATCGTCTT
62123169 ACGGGATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 26 0.93
19 2 0.07
ACGTcount: A:0.17, C:0.45, G:0.04, T:0.34
Consensus pattern (18 bp):
CCCATCGTCTTTCCAATC
Found at i:62124855 original size:223 final size:224
Alignment explanation
Indices: 62124422--62125061 Score: 752
Period size: 223 Copynumber: 2.8 Consensus size: 224
62124412 AAGTAGGATG
*
62124422 TACTGTAGAAAAAGAGCATCCAGGTGGGAGCATTTTTCAGTACTTTTGCTGACAGTGCATCTTGC
1 TACTGTAGAAAAAGAGCATCCAGATGGGAGCATTTTTCAGTACTTTTGCTGACAGTGCATCTTGC
* * * * *
62124487 TTGAAGCGTTTTTGACCCTATTTTTTTAGAACCATCTTCTCAAAATTATTTTTTCAGAAATTGCT
66 TTGAAGCATTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAACTACT
* * * * * **
62124552 GTAG-AAAATAGTGTCCAGAT-AGAAGCTTTTTTTAGTAATTTTGCTAACAATACATCCTGTTTG
131 GTAGAAAAATAGCGTTCAGATGAG-GGCTTTTTTTAGTACTTTTGCTGACAATACATCCTACTTG
*
62124615 AAGTGTTTTTGACCCTATT-TTTTCAAAAAC
195 AAGTGTTTTTGACCCTATTATTGT-AAAAAC
* * * * *
62124645 TACTGTAGAAAAAGAGTATCCAGTTGGGAGCATCTTTCAGTACTTTTGCTGACAGTGTATCCTGC
1 TACTGTAGAAAAAGAGCATCCAGATGGGAGCATTTTTCAGTACTTTTGCTGACAGTGCATCTTGC
** * *
62124710 TCAAAGCATTTTTGACACTATTTTTTCAGAACCATCTTTTCAAAATTATTTTTTCAGAAACTATT
66 TTGAAGCATTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAACTACT
* * *
62124775 GTAGAAAAATAGCGTTTAGATGAGGGCTTTTTTTAGTACTTTTGCTGACAGTGCATCCTACTTGA
131 GTAGAAAAATAGCGTTCAGATGAGGGCTTTTTTTAGTACTTTTGCTGACAATACATCCTACTTGA
* *
62124840 AGT-TTTTTTACCCTATTATTGTAGAAAC
196 AGTGTTTTTGACCCTATTATTGTAAAAAC
* * ** * *
62124868 TACTGTAAAAAAATAAAAAGAACATTTAGATGGGAGCATTTTTTAGTATTTTTGCTGACAGTGCA
1 TACTGT------AGAAAAAGAGCATCCAGATGGGAGCATTTTTCAGTACTTTTGCTGACAGTGCA
* * * * *
62124933 TCTTGCTTGAAGCATTTTTTACATTATTTTTTTTCATAACCATCTTCTCAAAATTATTTTCTCAA
60 TCTTGCTTGAAGCATTTTTGACACTA--TTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAG
* * *
62124998 AAACTACTGTAGAAAAAGAACGTTCAGATG-GGAGCTTTTTTCAGTACTTTTGCTGA-AAGTACA
123 AAACTACTGTAGAAAAATAGCGTTCAGATGAGG-GCTTTTTTTAGTACTTTTGCTGACAA-TACA
62125061 T
186 T
62125062 ACTTTTTGAA
Statistics
Matches: 351, Mismatches: 53, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
223 144 0.41
224 53 0.15
225 2 0.01
229 64 0.18
230 3 0.01
231 85 0.24
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (224 bp):
TACTGTAGAAAAAGAGCATCCAGATGGGAGCATTTTTCAGTACTTTTGCTGACAGTGCATCTTGC
TTGAAGCATTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAACTACT
GTAGAAAAATAGCGTTCAGATGAGGGCTTTTTTTAGTACTTTTGCTGACAATACATCCTACTTGA
AGTGTTTTTGACCCTATTATTGTAAAAAC
Found at i:62125156 original size:126 final size:125
Alignment explanation
Indices: 62124882--62125303 Score: 455
Period size: 126 Copynumber: 3.4 Consensus size: 125
62124872 GTAAAAAAAT
* * *
62124882 AAAAAGAACATTTAGATGGGAGCATTTTTT-AGTATTTTTGCTGACAGTGCATCTTGCTTGAAGC
1 AAAAAGAACGTTCAGATGGGAGC-TTTTTTCAGTACTTTTGCTGACAGTGCATCTT-CTTGAAGC
** * * * * *
62124946 ATTTTTTACATTATTTTTTTTCATAACCATCTTCTCAAAATTATTTTCTCAAAAACTACTGTAG
64 ATTTTTTAC-CCA-ATTTTTTCATAACTATCTTCTCAAAATTATTTTTTTAGAAACTACTGTAG
* * *
62125010 AAAAAGAACGTTCAGATGGGAGCTTTTTTCAGTACTTTTGCTGAAAGTACATACTTTTTGAAGCA
1 AAAAAGAACGTTCAGATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCAT-CTTCTTGAAGCA
* *
62125075 TTTTTTACCCAATATTTTT-AGAACTATCTTCTCAAAATTATTTTTTTAGAAACTACTATAG
65 TTTTTTACCCAAT-TTTTTCATAACTATCTTCTCAAAATTATTTTTTTAGAAACTACTGTAG
* * * * * *
62125136 AAAAAGAGCG-TCTAGGTGGGAGTTTTTTTCAATACTTTTGCTGACAGTGCATCCTGCTTGAAAC
1 AAAAAGAACGTTC-AGATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCAT-CTTCTTGAAGC
* * *
62125200 ATTTTTTAACCTATTTTTTCATAA-TCATCTTCTCAAAATTATTTTTATAGAAACTACTGTAG
64 ATTTTTTACCCAATTTTTTCATAACT-ATCTTCTCAAAATTATTTTTTTAGAAACTACTGTAG
* * *
62125262 AAAAA-AA-GTCCA-ACTAGGAG-TTTTTTCAGTACTTTTTCTGAC
1 AAAAAGAACGTTCAGA-TGGGAGCTTTTTTCAGTACTTTTGCTGAC
62125304 TAAACAAAAA
Statistics
Matches: 250, Mismatches: 36, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
123 20 0.08
124 7 0.03
125 10 0.04
126 142 0.57
127 12 0.05
128 56 0.22
129 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (125 bp):
AAAAAGAACGTTCAGATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCTTCTTGAAGCAT
TTTTTACCCAATTTTTTCATAACTATCTTCTCAAAATTATTTTTTTAGAAACTACTGTAG
Found at i:62125399 original size:22 final size:22
Alignment explanation
Indices: 62125371--62125420 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
62125361 TAAAACTATT
62125371 ACAAAAACATTAAAACCCCTAA
1 ACAAAAACATTAAAACCCCTAA
62125393 ACAAAAACATTAAAACCCCTAA
1 ACAAAAACATTAAAACCCCTAA
62125415 ACAAAA
1 ACAAAA
62125421 GTTCACTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.62, C:0.26, G:0.00, T:0.12
Consensus pattern (22 bp):
ACAAAAACATTAAAACCCCTAA
Found at i:62125471 original size:28 final size:28
Alignment explanation
Indices: 62125440--62125518 Score: 72
Period size: 33 Copynumber: 2.6 Consensus size: 28
62125430 TAAAAATCTT
62125440 TAAACCTTAATTTATTTTTTAAAAAT-AA
1 TAAACCTTAATTTATTTTTT-AAAATCAA
*
62125468 TAAACCGTAATTAAATTTATTTTTTAAAATCCA
1 TAAACC----TT-AATTTATTTTTTAAAATCAA
62125501 TAAACAC-TAATTTATTTT
1 TAAAC-CTTAATTTATTTT
62125519 AACAAAAACC
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
28 16 0.37
29 1 0.02
32 7 0.16
33 18 0.42
34 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.46
Consensus pattern (28 bp):
TAAACCTTAATTTATTTTTTAAAATCAA
Found at i:62125576 original size:22 final size:22
Alignment explanation
Indices: 62125531--62125576 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
62125521 CAAAAACCAT
*
62125531 AACCCTAAACCCTAAATATCTA
1 AACCCTAAACCCTAAACATCTA
* * *
62125553 AACCTTAAGCCCTAAACATGTA
1 AACCCTAAACCCTAAACATCTA
62125575 AA
1 AA
62125577 TAACCCATCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.46, C:0.28, G:0.04, T:0.22
Consensus pattern (22 bp):
AACCCTAAACCCTAAACATCTA
Found at i:62129330 original size:16 final size:16
Alignment explanation
Indices: 62129309--62129356 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
62129299 TTTTAAAGAA
62129309 AATATATACATAAAAT
1 AATATATACATAAAAT
*
62129325 AATATA-ACAT-CAAT
1 AATATATACATAAAAT
*
62129339 AATATATACATAGAAT
1 AATATATACATAAAAT
62129355 AA
1 AA
62129357 GAAAATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 9 0.32
15 8 0.29
16 11 0.39
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.29
Consensus pattern (16 bp):
AATATATACATAAAAT
Found at i:62129339 original size:14 final size:15
Alignment explanation
Indices: 62129309--62129349 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
62129299 TTTTAAAGAA
*
62129309 AATATATACATAAAAT
1 AATATATACAT-CAAT
62129325 AATATA-ACATCAAT
1 AATATATACATCAAT
62129339 AATATATACAT
1 AATATATACAT
62129350 AGAATAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 9 0.39
15 8 0.35
16 6 0.26
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.32
Consensus pattern (15 bp):
AATATATACATCAAT
Found at i:62131003 original size:15 final size:15
Alignment explanation
Indices: 62130983--62131012 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62130973 TTCACTATTA
*
62130983 TATCTTTTGTATTTT
1 TATCTTTTATATTTT
62130998 TATCTTTTATATTTT
1 TATCTTTTATATTTT
62131013 GCATGCATAA
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:0.17, C:0.07, G:0.03, T:0.73
Consensus pattern (15 bp):
TATCTTTTATATTTT
Found at i:62140406 original size:94 final size:94
Alignment explanation
Indices: 62140237--62140595 Score: 352
Period size: 94 Copynumber: 3.8 Consensus size: 94
62140227 GTTATGTGAG
* * * * ** * * *
62140237 AGCCAGTATAAGACCATGTATGGGACATGGCATCGGCGTTGAGACGAGGGCTAGTGTAAGGCGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TAGAGGTGAGTGCTAGTGTAAGACATG
*
62140302 TCTGGGACATGCATCTGCCAC-ATCATGAT
65 TCTGGGACATGCATCAGCCACGATCATGAT
* **
62140331 AGCCCGTGTAAGACCACATCTGGGACATGGCATCGACATAGAGGTGAGTGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TAGAGGTGAGTGCTAGTGTAAGACATG
* * *
62140396 TCTGGGACATGCATCAGCCTCGATGATGTT
65 TCTGGGACATGCATCAGCCACGATCATGAT
* * * **
62140426 AGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGGCTA-AGTTTCGTGCTAGTGTAAGACATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTAGAGGTGAGTGCTAGTGTAAGACATGT
* *
62140488 CTGGGACATGCATCAG-CACGTATACACGAA
66 CTGGGACATGCATCAGCCACG-AT-CATGAT
* * * * *
62140518 AGCTAGTGCAAGACCATGTCTGGGACATGGCATCGACCTCGATG-GAGATAGCTAGCGTAAGACC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTAGAGGTGAG-T-GCTAGTGTAAGA-C
62140582 ATGTCTGGGACATG
62 ATGTCTGGGACATG
62140596 GCAGCGGCAA
Statistics
Matches: 215, Mismatches: 40, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
90 3 0.01
91 40 0.19
92 15 0.07
93 20 0.09
94 88 0.41
95 21 0.10
96 2 0.01
97 11 0.05
98 15 0.07
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTAGAGGTGAGTGCTAGTGTAAGACATGT
CTGGGACATGCATCAGCCACGATCATGAT
Found at i:62140491 original size:44 final size:47
Alignment explanation
Indices: 62140378--62140504 Score: 156
Period size: 44 Copynumber: 2.8 Consensus size: 47
62140368 ATAGAGGTGA
*
62140378 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATGATGTT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTC-AAGATGTT
* * * *
62140426 -AGCCAGTGTAAGACGTGTCTGGGACATGCATC-GGCT-AAG-T-TT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATGTT
62140468 CGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGC
1 -GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGC
62140505 ACGTATACAC
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
42 2 0.03
43 1 0.01
44 31 0.46
45 1 0.01
46 3 0.04
47 29 0.43
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.27
Consensus pattern (47 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATGTT
Found at i:62140545 original size:49 final size:48
Alignment explanation
Indices: 62140380--62140595 Score: 153
Period size: 49 Copynumber: 4.6 Consensus size: 48
62140370 AGAGGTGAGT
* * **
62140380 GCTAGTGTAAGA-CATGTCTGGGACATGCATC-AGCCTCGATGA-TGTTA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGA-CCACGAT-ACAGAAA
* * * * * * * *
62140427 GCCAGTGTAAGA-CGTGTCTGGGACATGCATCGGCTAAGTTTC-G--T
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGACCACGATACAGAAA
*
62140471 GCTAGTGTAAGA-CATGTCTGGGACATGCATC-AGCACGTATACACGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGACCACG-ATACA-GAAA
* * ** *
62140519 GCTAGTGCAAGACCATGTCTGGGACATGGCATCGACCTCGATGGAGATA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGACCACGATACAGAAA
*
62140568 GCTAGCGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGACCATGTCTGGGACATG
62140596 GCAGCGGCAA
Statistics
Matches: 133, Mismatches: 26, Indels: 19
0.75 0.15 0.11
Matches are distributed among these distances:
43 2 0.02
44 31 0.23
46 2 0.02
47 32 0.24
48 12 0.09
49 42 0.32
50 8 0.06
51 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGACCACGATACAGAAA
Found at i:62140598 original size:49 final size:47
Alignment explanation
Indices: 62140286--62140595 Score: 185
Period size: 47 Copynumber: 6.6 Consensus size: 47
62140276 TGAGACGAGG
* * * *
62140286 GCTAGTGTAAGGCGTGTCTGGGACATGCATCTG-CCAC-AT-CATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GACCTCGATGGA-GATA
** ** * * *
62140332 GCCCGTGTAAGACCACATCTGGGACATGGCATCGACATAGA-GGTGAGT-
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGATGGAGA-TA
*
62140380 GCTAGTGTAAGACATGTCTGGGACATGCATC-AGCCTCGAT-GATGTTA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGA-CCTCGATGGA-GATA
* * * * ***
62140427 GCCAGTGTAAGACGTGTCTGGGACATGCATCG-GCT-AAGTTTCG-T-
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGA-TGGAGATA
* * ** *
62140471 GCTAGTGTAAGACATGTCTGGGACATGCATC-AGCACGTATACACGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCG-ATGGA-GATA
*
62140519 GCTAGTGCAAGACCATGTCTGGGACATGGCATCGACCTCGATGGAGATA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGATGGAGATA
*
62140568 GCTAGCGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
62140596 GCAGCGGCAA
Statistics
Matches: 201, Mismatches: 41, Indels: 42
0.71 0.14 0.15
Matches are distributed among these distances:
44 31 0.15
45 4 0.02
46 26 0.13
47 54 0.27
48 30 0.15
49 44 0.22
50 8 0.04
51 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGATGGAGATA
Found at i:62154962 original size:53 final size:53
Alignment explanation
Indices: 62154882--62154990 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 53
62154872 TTTGCTTCTT
*
62154882 TTTCCCTATCTCTTTAATTTTTGTTGTTATTGTGACGAACTTGTTTATGGATA
1 TTTCCCTATCTCTTTAATTTTTGTTGTTATTGTGACGAACATGTTTATGGATA
* *
62154935 TTTCCCTATCTCTTTAATTTTTGTTGTTATTTTGATGAACATGTTTATGGATA
1 TTTCCCTATCTCTTTAATTTTTGTTGTTATTGTGACGAACATGTTTATGGATA
62154988 TTT
1 TTT
62154991 ATGCTATTGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.55
Consensus pattern (53 bp):
TTTCCCTATCTCTTTAATTTTTGTTGTTATTGTGACGAACATGTTTATGGATA
Found at i:62160962 original size:22 final size:21
Alignment explanation
Indices: 62160932--62161052 Score: 66
Period size: 19 Copynumber: 6.2 Consensus size: 21
62160922 TACAAATTAA
62160932 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
62160954 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
62160975 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
62160994 ATCT--AAGATT---GTATCAT
1 ATCTCCAAGATTACAG-ATCAT
* *
62161011 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
62161030 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
62161049 ATCT
1 ATCT
62161053 AAGATTGCAT
Statistics
Matches: 90, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
17 15 0.17
19 53 0.59
21 10 0.11
22 12 0.13
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:62160984 original size:19 final size:19
Alignment explanation
Indices: 62160949--62161065 Score: 202
Period size: 19 Copynumber: 6.2 Consensus size: 19
62160939 AGATTACAAG
62160949 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
62160970 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
62160989 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
62161006 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
62161025 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
62161044 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
62161063 ATC
1 ATC
62161066 CTTAAAGATT
Statistics
Matches: 94, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
17 17 0.18
19 68 0.72
20 1 0.01
21 8 0.09
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:62161023 original size:55 final size:57
Alignment explanation
Indices: 62160949--62161059 Score: 208
Period size: 55 Copynumber: 2.0 Consensus size: 57
62160939 AGATTACAAG
62160949 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTGT
62161006 ATCATATC-T-AAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTG
62161060 CATATCCTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
55 45 0.83
56 1 0.02
57 8 0.15
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (57 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTGT
Found at i:62161074 original size:55 final size:54
Alignment explanation
Indices: 62160950--62161075 Score: 193
Period size: 55 Copynumber: 2.3 Consensus size: 54
62160940 GATTACAAGA
62160950 TCATATCTTCAAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TCATATCTT-AAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTG
62161005 TATCATATC-TAAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTG
1 --TCATATCTTAAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTG
62161060 -CATATCCTTAAAGATT
1 TCATAT-CTT-AAGATT
62161076 ATAATTCCAT
Statistics
Matches: 66, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
52 5 0.08
53 1 0.02
54 1 0.02
55 51 0.77
56 1 0.02
57 7 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (54 bp):
TCATATCTTAAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:62161075 original size:36 final size:38
Alignment explanation
Indices: 62160949--62161065 Score: 202
Period size: 36 Copynumber: 3.1 Consensus size: 38
62160939 AGATTACAAG
62160949 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTGCATATCATATCTAAGATTGCAT
62160989 ATCATATCTAAGATTG--TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
62161025 ATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
62161063 ATC
1 ATC
62161066 CTTAAAGATT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
36 36 0.48
38 30 0.40
39 1 0.01
40 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (38 bp):
ATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
Found at i:62161825 original size:206 final size:206
Alignment explanation
Indices: 62161454--62161965 Score: 803
Period size: 206 Copynumber: 2.5 Consensus size: 206
62161444 AATCTGTTAT
* * *
62161454 CTTCGATCTGTTTTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCA-
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * * *
62161518 TGCGAAAACCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCT
66 T-TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATACCAAACCATCT
* * * * * *
62161583 TGGATCTGTTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTT-TGCCCTCCGTCGAATA
130 TGGATCTGCTTCAGTATAAACATCCGAAGGTTAGATCTGCAATGT-TTCTGCCCTCCGCCGAATA
62161647 TGGAGACGCCAAA
194 TGGAGACGCCAAA
*
62161660 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
62161725 TTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTT
66 TTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATACCAAACCATCTT
* *
62161790 GGATCTGCTTCAGTATAAACATCCGAGGGTTAGATCTGCAATGTTTCTGCTCTCCGCCGAATATG
131 GGATCTGCTTCAGTATAAACATCCGAAGGTTAGATCTGCAATGTTTCTGCCCTCCGCCGAATATG
62161855 GAGACGCCAAA
196 GAGACGCCAAA
62161866 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
62161931 GTGAAAGCCAAATCAGCTATGTATTCGATTTGTTC
66 TTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTC
62161966 TCCAAACTTT
Statistics
Matches: 282, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
205 2 0.01
206 279 0.99
207 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
TTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATACCAAACCATCTT
GGATCTGCTTCAGTATAAACATCCGAAGGTTAGATCTGCAATGTTTCTGCCCTCCGCCGAATATG
GAGACGCCAAA
Found at i:62162046 original size:106 final size:106
Alignment explanation
Indices: 62161861--62162071 Score: 386
Period size: 106 Copynumber: 2.0 Consensus size: 106
62161851 TATGGAGACG
62161861 CCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
1 CCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
*
62161926 AGCACGTGAAAGCCAAATCAGCTATGTATTCGATTTGTTCT
66 AGCACATGAAAGCCAAATCAGCTATGTATTCGATTTGTTCT
* *
62161967 CCAAACTTTGATTTGTTCTCTGACAATACGGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
1 CCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
*
62162032 AGCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTC
66 AGCACATGAAAGCCAAATCAGCTATGTATTCGATTTGTTC
62162072 CTTGTAAGCA
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 101 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (106 bp):
CCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
AGCACATGAAAGCCAAATCAGCTATGTATTCGATTTGTTCT
Found at i:62162220 original size:312 final size:311
Alignment explanation
Indices: 62161655--62162276 Score: 1039
Period size: 312 Copynumber: 2.0 Consensus size: 311
62161645 TATGGAGACG
62161655 CCAAACTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
1 CCAAACTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
*
62161720 AGCACTTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATC
66 AGCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATC
* * * ** * *
62161785 ATCTTGGATCTGCTTCAGTATAAACATCCGAGGGTTAGATCTGCAATGTTTCTGCTCTCCGCCGA
131 ATCTTGGATCTGCTTCAATATAAACATACGAAGGCCAGATCTACAATGTGTCTGCTCTCCGCCGA
62161850 ATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTT
196 ATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTT
* *
62161915 GCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTATGTATTCGATTTGTTCT
261 GCTTCAGCGTAAAC-CGTGAAAGCCAAATCAGCTATGTATTCGATTTGTTCT
*
62161967 CCAAACTTTGATTTGTTCTCTGACAATACGGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
1 CCAAACTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
*
62162032 AGCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
66 AGCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATC
* * ** *
62162097 A-CATTGGATCTGCTTTAATATAAACATATGAAGGCCAGATCTATTATGTGTCTGCTCTCCGTCG
131 ATC-TTGGATCTGCTTCAATATAAACATACGAAGGCCAGATCTACAATGTGTCTGCTCTCCGCCG
62162161 AATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATT
195 AATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATT
* * *
62162226 TGCTTCAGCGTAAACCGTGAAAGCTAAATCAGCTATGTCTTTGATTTGTTC
260 TGCTTCAGCGTAAACCGTGAAAGCCAAATCAGCTATGTATTCGATTTGTTC
62162277 CTTGTAAGCA
Statistics
Matches: 289, Mismatches: 20, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
311 34 0.12
312 255 0.88
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (311 bp):
CCAAACTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
AGCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATC
ATCTTGGATCTGCTTCAATATAAACATACGAAGGCCAGATCTACAATGTGTCTGCTCTCCGCCGA
ATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTT
GCTTCAGCGTAAACCGTGAAAGCCAAATCAGCTATGTATTCGATTTGTTCT
Found at i:62162338 original size:44 final size:44
Alignment explanation
Indices: 62162271--62162434 Score: 143
Period size: 44 Copynumber: 3.7 Consensus size: 44
62162261 TGTCTTTGAT
* * * *
62162271 TTGTTCCTTGTAAGCACAAGGATGCCAAATCTGCTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
** *
62162315 TTGTTCCCTATAAACACAGGGATGCC--ATGCTGAAATCTTCGATC
1 TTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTATCTTC-AAC
** * * * * * * * *
62162359 TACTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGAT
1 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
62162403 TTGTTCCCTATAAACACAGGGATGCCAAATCT
1 TTGTTCCCTATAAACACAGGGATGCCAAATCT
62162435 TGTTTTTTTG
Statistics
Matches: 89, Mismatches: 27, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
42 2 0.02
43 9 0.10
44 67 0.75
45 9 0.10
46 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
Found at i:62163304 original size:26 final size:25
Alignment explanation
Indices: 62163275--62163327 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
62163265 TCACCTTGGC
62163275 CTCTCCATTTTTA-TTTTTTCATTTTT
1 CTCT-CATTTTTATTTTTTTC-TTTTT
**
62163301 CTCTTTTTTTTATTTTTTTCTTTTT
1 CTCTCATTTTTATTTTTTTCTTTTT
62163326 CT
1 CT
62163328 TTTCTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (25 bp):
CTCTCATTTTTATTTTTTTCTTTTT
Found at i:62163310 original size:17 final size:17
Alignment explanation
Indices: 62163288--62163325 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
62163278 TCCATTTTTA
62163288 TTTTTTCATTTTTCTCT
1 TTTTTTCATTTTTCTCT
* *
62163305 TTTTTTTATTTTTTTCT
1 TTTTTTCATTTTTCTCT
62163322 TTTT
1 TTTT
62163326 CTTTTCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTCATTTTTCTCT
Found at i:62163316 original size:25 final size:23
Alignment explanation
Indices: 62163282--62163348 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 23
62163272 GGCCTCTCCA
62163282 TTTTTATTTTTTCATTTTTCTCTTT
1 TTTTTATTTTTTC-TTTTTCT-TTT
62163307 TTTTTATTTTTTTCTTTTTCTTTT
1 TTTTTA-TTTTTTCTTTTTCTTTT
*
62163331 CTTTTT-TTTTTCCTTTTT
1 -TTTTTATTTTTTCTTTTT
62163349 TTTGAAATAG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
23 11 0.28
24 3 0.08
25 18 0.46
26 7 0.18
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTTATTTTTTCTTTTTCTTTT
Found at i:62163318 original size:19 final size:19
Alignment explanation
Indices: 62163296--62163338 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
62163286 TATTTTTTCA
62163296 TTTTTCTCTTTT-TTTTATT
1 TTTTTCT-TTTTCTTTTATT
*
62163315 TTTTTCTTTTTCTTTTCTT
1 TTTTTCTTTTTCTTTTATT
62163334 TTTTT
1 TTTTT
62163339 TTTCCTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTCTTTTTCTTTTATT
Found at i:62163335 original size:17 final size:17
Alignment explanation
Indices: 62163290--62163351 Score: 56
Period size: 19 Copynumber: 3.6 Consensus size: 17
62163280 CATTTTTATT
*
62163290 TTTTCATTTTTCTCTTTTT
1 TTTTC-TTTTTCT-TTTTC
*
62163309 TTTATTTTTTTCTTTTTC
1 TTT-TCTTTTTCTTTTTC
62163327 TTTTCTTTTT-TTTTTC
1 TTTTCTTTTTCTTTTTC
*
62163343 CTTT-TTTTT
1 TTTTCTTTTT
62163352 GAAATAGAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
15 5 0.13
16 9 0.24
17 6 0.16
18 7 0.18
19 10 0.26
20 1 0.03
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTCTTTTTCTTTTTC
Found at i:62168217 original size:22 final size:21
Alignment explanation
Indices: 62168187--62168252 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
62168177 TACAAATTAA
62168187 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
62168209 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
62168230 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
62168249 ATCT
1 ATCT
62168253 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:62168239 original size:19 final size:19
Alignment explanation
Indices: 62168204--62168301 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
62168194 AGATTACAAG
62168204 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
62168225 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
62168244 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
62168261 ATCAAATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
62168280 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
62168299 ATC
1 ATC
62168302 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:62168270 original size:36 final size:37
Alignment explanation
Indices: 62168204--62168301 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
62168194 AGATTACAAG
*
62168204 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCAAATCTAAGATTGCAT
62168244 ATCATATCTAAGATTG-TATCAAATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCAAATCTAAGATTGCAT
62168280 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
62168302 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCAAATCTAAGATTGCAT
Found at i:62168932 original size:11 final size:11
Alignment explanation
Indices: 62168889--62168944 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
62168879 AATTAAAAAA
*
62168889 TAAAAAATAAT
1 TAAAAATTAAT
62168900 TATAATAATTAA-
1 TA-AA-AATTAAT
* *
62168912 TAATATATTATT
1 TAA-AAATTAAT
62168924 TAAAAATTAAT
1 TAAAAATTAAT
62168935 TAAAAATTAA
1 TAAAAATTAA
62168945 ATGCGTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
11 23 0.64
12 8 0.22
13 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TAAAAATTAAT
Found at i:62169276 original size:18 final size:19
Alignment explanation
Indices: 62169255--62169298 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
62169245 TATTTTAACC
*
62169255 TTTTATTTAAT-TTTATAT
1 TTTTATTTAATCTTTAAAT
*
62169273 TTTT-TTTAGTCTTTAAAT
1 TTTTATTTAATCTTTAAAT
62169291 TTTTATTT
1 TTTTATTT
62169299 TTTTTGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 14 0.64
19 3 0.14
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTATTTAATCTTTAAAT
Found at i:62171246 original size:13 final size:14
Alignment explanation
Indices: 62171230--62171265 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
62171220 CAATCTCATA
62171230 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
62171243 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
62171256 TCTC-ATTTCA
1 TCTCAATTTCA
62171266 TTCCAATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:62171255 original size:18 final size:19
Alignment explanation
Indices: 62171217--62171257 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
62171207 TGGTTCATGT
62171217 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
62171236 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
62171254 TTTC
1 TTTC
62171258 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:62171918 original size:15 final size:15
Alignment explanation
Indices: 62171898--62171944 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
62171888 TATTATATAT
62171898 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
62171913 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
62171928 TTCAATCAATATAAA
1 TTCAATCAATATAAA
62171943 TT
1 TT
62171945 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:62172891 original size:23 final size:23
Alignment explanation
Indices: 62172855--62172908 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
62172845 GTCCCCTGCT
*
62172855 ATTCTGTTTCTTTCCTTCTTTTA
1 ATTCTTTTTCTTTCCTTCTTTTA
* * *
62172878 ATTCTTTTTGTTTCTTTCTTTTG
1 ATTCTTTTTCTTTCCTTCTTTTA
*
62172901 TTTCTTTT
1 ATTCTTTT
62172909 ATATATATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.06, C:0.17, G:0.06, T:0.72
Consensus pattern (23 bp):
ATTCTTTTTCTTTCCTTCTTTTA
Found at i:62172901 original size:13 final size:13
Alignment explanation
Indices: 62172883--62172907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62172873 TTTTAATTCT
62172883 TTTTGTTTCTTTC
1 TTTTGTTTCTTTC
62172896 TTTTGTTTCTTT
1 TTTTGTTTCTTT
62172908 TATATATATA
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:0.00, C:0.12, G:0.08, T:0.80
Consensus pattern (13 bp):
TTTTGTTTCTTTC
Found at i:62174408 original size:16 final size:17
Alignment explanation
Indices: 62174387--62174419 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62174377 TTTTTTTAAA
62174387 ATTT-AATATATCAAAT
1 ATTTAAATATATCAAAT
62174403 ATTTAAATATATCAAAT
1 ATTTAAATATATCAAAT
62174420 GAATTAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAAATATATCAAAT
Found at i:62175921 original size:124 final size:125
Alignment explanation
Indices: 62175679--62175928 Score: 493
Period size: 124 Copynumber: 2.0 Consensus size: 125
62175669 TTTCATGAAA
62175679 GGAATTTGATATTGGCTTTGGAAATATCTGGAAAGAGTTGTAAAGTTGATAATATAAAAAAAAAG
1 GGAATTTGATATTGGCTTTGGAAATATCTGGAAAGAGTTGTAAAGTTGATAATATAAAAAAAAAG
62175744 ACCAAATCATAAATTTTGAAAAATATTGATTATTGCGTATTATTTAACATGAAACAAATT
66 ACCAAATCATAAATTTTGAAAAATATTGATTATTGCGTATTATTTAACATGAAACAAATT
62175804 GGAATTTGATATTGGCTTTGGAAATATCTGGAAAGAGTTGTAAAGTTGATAATAT-AAAAAAAAG
1 GGAATTTGATATTGGCTTTGGAAATATCTGGAAAGAGTTGTAAAGTTGATAATATAAAAAAAAAG
62175868 ACCAAATCATAAATTTTGAAAAATATTGATTATTGCGTATTATTTAACATGAAACAAATT
66 ACCAAATCATAAATTTTGAAAAATATTGATTATTGCGTATTATTTAACATGAAACAAATT
62175928 G
1 G
62175929 AAATGTGTTT
Statistics
Matches: 125, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
124 70 0.56
125 55 0.44
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (125 bp):
GGAATTTGATATTGGCTTTGGAAATATCTGGAAAGAGTTGTAAAGTTGATAATATAAAAAAAAAG
ACCAAATCATAAATTTTGAAAAATATTGATTATTGCGTATTATTTAACATGAAACAAATT
Found at i:62182640 original size:19 final size:19
Alignment explanation
Indices: 62182616--62182654 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
62182606 TTTATTTATG
62182616 TTAATTAAGT-TAGGTTAAT
1 TTAATTAA-TCTAGGTTAAT
62182635 TTAATTAATCTAGGTTAAT
1 TTAATTAATCTAGGTTAAT
62182654 T
1 T
62182655 AAAGATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.49
Consensus pattern (19 bp):
TTAATTAATCTAGGTTAAT
Found at i:62185240 original size:18 final size:18
Alignment explanation
Indices: 62185214--62185254 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
62185204 AAAACATCAT
62185214 TGTTCAAGGGGA-AGCTAC
1 TGTTCAAGGGGAGA-CTAC
*
62185232 TGTTTAAGGGGAGACTAC
1 TGTTCAAGGGGAGACTAC
62185250 TGTTC
1 TGTTC
62185255 CAGAAAGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (18 bp):
TGTTCAAGGGGAGACTAC
Found at i:62187283 original size:22 final size:22
Alignment explanation
Indices: 62187255--62187298 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
62187245 TATCAACACC
62187255 TTGCATTAAAAAAAGAGAGGGA
1 TTGCATTAAAAAAAGAGAGGGA
62187277 TTGCATTAAAAAAAGAGAGGGA
1 TTGCATTAAAAAAAGAGAGGGA
62187299 GTGAGCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.27, T:0.18
Consensus pattern (22 bp):
TTGCATTAAAAAAAGAGAGGGA
Found at i:62191252 original size:22 final size:22
Alignment explanation
Indices: 62191216--62191257 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
62191206 AATAATATAT
*
62191216 TTTATAAAATAATAATAAAAGG
1 TTTATAAAATAATAAAAAAAGG
* *
62191238 TTTATAAATTTATAAAAAAA
1 TTTATAAAATAATAAAAAAA
62191258 AAAAAAAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (22 bp):
TTTATAAAATAATAAAAAAAGG
Found at i:62192748 original size:18 final size:17
Alignment explanation
Indices: 62192722--62192755 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
62192712 TTAAAAAATC
*
62192722 ATATTTTTTTTACATTTA
1 ATATATTTTTTA-ATTTA
62192740 ATATATTTTTTAATTT
1 ATATATTTTTTAATTT
62192756 CAAAATACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
ATATATTTTTTAATTTA
Found at i:62196293 original size:22 final size:22
Alignment explanation
Indices: 62196265--62196336 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
62196255 TGAATAAACC
62196265 AAATAAACTTTATTACTGCAGA
1 AAATAAACTTTATTACTGCAGA
* * *
62196287 AAATAAAC-GTA--A-TGTAAA
1 AAATAAACTTTATTACTGCAGA
62196305 CCAAATAAACTTTATTACTGCAGA
1 --AAATAAACTTTATTACTGCAGA
62196329 AAATAAAC
1 AAATAAAC
62196337 GTAATATCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
18 4 0.11
19 1 0.03
20 8 0.21
21 4 0.11
22 16 0.42
23 1 0.03
24 4 0.11
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.26
Consensus pattern (22 bp):
AAATAAACTTTATTACTGCAGA
Found at i:62196306 original size:42 final size:42
Alignment explanation
Indices: 62196259--62196341 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
62196249 AGAGTGTGAA
62196259 TAAACCAAATAAACTTTATTACTGCAGAAAATAAACGTAATG
1 TAAACCAAATAAACTTTATTACTGCAGAAAATAAACGTAATG
62196301 TAAACCAAATAAACTTTATTACTGCAGAAAATAAACGTAAT
1 TAAACCAAATAAACTTTATTACTGCAGAAAATAAACGTAAT
62196342 ATCTTTAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (42 bp):
TAAACCAAATAAACTTTATTACTGCAGAAAATAAACGTAATG
Found at i:62197145 original size:103 final size:103
Alignment explanation
Indices: 62196966--62197171 Score: 376
Period size: 103 Copynumber: 2.0 Consensus size: 103
62196956 TTGATTGAGG
** *
62196966 CTATACTTATTATTGGTAATCAGTATGTCACCAAATATAGAACCTTACTCCCACTAAACTTATGG
1 CTATACTTATTATTGACAATCAGTATGGCACCAAATATAGAACCTTACTCCCACTAAACTTATGG
*
62197031 TATATACGATTATCAATAAAATTTATCTCTAAACCAAA
66 TATATAAGATTATCAATAAAATTTATCTCTAAACCAAA
62197069 CTATACTTATTATTGACAATCAGTATGGCACCAAATATAGAACCTTACTCCCACTAAACTTATGG
1 CTATACTTATTATTGACAATCAGTATGGCACCAAATATAGAACCTTACTCCCACTAAACTTATGG
62197134 TATATAAGATTATCAATAAAATTTATCTCTAAACCAAA
66 TATATAAGATTATCAATAAAATTTATCTCTAAACCAAA
62197172 TGAGATAATC
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 99 1.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (103 bp):
CTATACTTATTATTGACAATCAGTATGGCACCAAATATAGAACCTTACTCCCACTAAACTTATGG
TATATAAGATTATCAATAAAATTTATCTCTAAACCAAA
Found at i:62197616 original size:23 final size:22
Alignment explanation
Indices: 62197581--62197626 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
62197571 ATATAATAAA
* *
62197581 TATATTTTCTTTTATTTTTAAT
1 TATATTTTATTTTAATTTTAAT
62197603 TATATTTATATTTTAATTTTAAT
1 TATATTT-TATTTTAATTTTAAT
62197626 T
1 T
62197627 TTAATATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (22 bp):
TATATTTTATTTTAATTTTAAT
Found at i:62200533 original size:17 final size:16
Alignment explanation
Indices: 62200512--62200546 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
62200502 TTGCATATAA
62200512 TATATATACACAC-AT
1 TATATATACACACAAT
62200527 TATATATACACACAAT
1 TATATATACACACAAT
62200543 TATA
1 TATA
62200547 ATAATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (16 bp):
TATATATACACACAAT
Found at i:62202103 original size:3 final size:3
Alignment explanation
Indices: 62202095--62202256 Score: 103
Period size: 3 Copynumber: 51.7 Consensus size: 3
62202085 TCTCTCTCAT
* * ** * * *
62202095 AAG AAG AAG AAG AAG AAG GAG GAG AA- AGAG GGG GAG GAG GAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG
*
62202140 GAG AAG AAG AA- AGAG AAGG AAG AAG AAG AAG AAAG AAG AAAG AAG AAAG
1 AAG AAG AAG AAG A-AG AA-G AAG AAG AAG AAG -AAG AAG -AAG AAG -AAG
* * * * * *
62202189 AAG AAAG AAG AAAG AAG AAAG GAG GAG GAG GAG GAG GAG AAG AAG AAG
1 AAG -AAG AAG -AAG AAG -AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
62202237 AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AA
62202257 ACATAAAATT
Statistics
Matches: 138, Mismatches: 10, Indels: 22
0.81 0.06 0.13
Matches are distributed among these distances:
2 2 0.01
3 114 0.83
4 22 0.16
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:62202184 original size:14 final size:14
Alignment explanation
Indices: 62202143--62202209 Score: 100
Period size: 14 Copynumber: 4.7 Consensus size: 14
62202133 GGAGAAGGAG
62202143 AAGAAGAAAG-AGA
1 AAGAAGAAAGAAGA
*
62202156 AGGAAGAAGAAGAAGA
1 AAGAAG-A-AAGAAGA
62202172 AAGAAGAAAGAAGA
1 AAGAAGAAAGAAGA
62202186 AAGAAGAAAGAAGA
1 AAGAAGAAAGAAGA
62202200 AAGAAGAAAG
1 AAGAAGAAAG
62202210 GAGGAGGAGG
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
13 5 0.10
14 32 0.65
15 4 0.08
16 8 0.16
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (14 bp):
AAGAAGAAAGAAGA
Found at i:62209171 original size:29 final size:29
Alignment explanation
Indices: 62209129--62209190 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
62209119 TGGAATTGGT
* ** *
62209129 GAACGAAAGTGAGAGGGGTATAAGTAGGA
1 GAACCAAAGTGAGAAAGGTATAAGTAAGA
62209158 GAACCAAAGTGAGAAAGGTATAAGTAAGA
1 GAACCAAAGTGAGAAAGGTATAAGTAAGA
62209187 GAAC
1 GAAC
62209191 TGAAGATGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.47, C:0.06, G:0.34, T:0.13
Consensus pattern (29 bp):
GAACCAAAGTGAGAAAGGTATAAGTAAGA
Found at i:62219670 original size:23 final size:24
Alignment explanation
Indices: 62219624--62219673 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
62219614 ACGTCTTAGG
*
62219624 AAATAAATAAAAAATAATGAGAGT
1 AAATAAACAAAAAATAATGAGAGT
*
62219648 AAATAAACAAGAAAT-ATGAGAGT
1 AAATAAACAAAAAATAATGAGAGT
62219671 AAA
1 AAA
62219674 AGAGAACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.66, C:0.02, G:0.14, T:0.18
Consensus pattern (24 bp):
AAATAAACAAAAAATAATGAGAGT
Found at i:62226523 original size:21 final size:20
Alignment explanation
Indices: 62226467--62226528 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 20
62226457 TTGCTAAAGT
*
62226467 TTTAATGTCAAACTTCAATGA
1 TTTAAT-TCAAATTTCAATGA
***
62226488 TTTAAGTTGTTATTTCAATGCA
1 TTTAA-TTCAAATTTCAATG-A
62226510 TTTAATTCAAATTTACAAT
1 TTTAATTCAAATTT-CAAT
62226529 TTTTTAATGC
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.45
Consensus pattern (20 bp):
TTTAATTCAAATTTCAATGA
Found at i:62226534 original size:21 final size:21
Alignment explanation
Indices: 62226510--62226553 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
62226500 TTTCAATGCA
*
62226510 TTTAATTC-AAATTTACAATTT
1 TTTAATGCTAAATTTA-AATTT
*
62226531 TTTAATGCTACATTTAAATTT
1 TTTAATGCTAAATTTAAATTT
62226552 TT
1 TT
62226554 GCTTAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTAATGCTAAATTTAAATTT
Found at i:62229352 original size:23 final size:23
Alignment explanation
Indices: 62229322--62229368 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
62229312 GGAAAGATAG
62229322 AAGTTTGACCGAGCTTCTGCGAC
1 AAGTTTGACCGAGCTTCTGCGAC
62229345 AAGTTTGACCGAGCTTCTGCGAC
1 AAGTTTGACCGAGCTTCTGCGAC
62229368 A
1 A
62229369 CTGACTCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
AAGTTTGACCGAGCTTCTGCGAC
Found at i:62246981 original size:15 final size:15
Alignment explanation
Indices: 62246961--62246990 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62246951 TATTTTATTT
*
62246961 ATATTAGGATAATTA
1 ATATTAAGATAATTA
62246976 ATATTAAGATAATTA
1 ATATTAAGATAATTA
62246991 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:62247018 original size:27 final size:26
Alignment explanation
Indices: 62246957--62247019 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
62246947 AGACTATTTT
62246957 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
62246984 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
62247012 ATTTTATT
1 ATTTTATT
62247020 TTAATTATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:62247034 original size:10 final size:10
Alignment explanation
Indices: 62247015--62247046 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
62247005 TTTTAGGATT
62247015 TTAT-TTTAA
1 TTATATTTAA
62247024 TTATATTTAA
1 TTATATTTAA
62247034 TTATATTTAA
1 TTATATTTAA
62247044 TTA
1 TTA
62247047 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATATTTAA
Found at i:62247057 original size:20 final size:19
Alignment explanation
Indices: 62247014--62247057 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
62247004 ATTTTAGGAT
* *
62247014 TTTATTTTAATTATATTTA
1 TTTATTTTAATTAAATGTA
*
62247033 ATTATATTTAATTAAATGTA
1 TTTAT-TTTAATTAAATGTA
62247053 TTTAT
1 TTTAT
62247058 CTTTTTAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTATTTTAATTAAATGTA
Found at i:62261168 original size:27 final size:28
Alignment explanation
Indices: 62261084--62261182 Score: 137
Period size: 27 Copynumber: 3.5 Consensus size: 28
62261074 CATGAGATTG
* * * *
62261084 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
62261113 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
62261141 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
62261168 GCACTGAGTGTGCGA
1 GCACTAAGTGTGCGA
62261183 ACTTAATATA
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 25 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:62261192 original size:27 final size:28
Alignment explanation
Indices: 62261112--62261195 Score: 107
Period size: 27 Copynumber: 3.0 Consensus size: 28
62261102 TAAATTGTAC
**
62261112 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAACTTGATTATAT
*
62261140 AGCACTAAGTGTGCG-AGTTGATTATAT
1 AGCACTAAGTGTGCGAACTTGATTATAT
* *
62261167 AGCACTGAGTGTGCGAACTTAATATATAT
1 AGCACTAAGTGTGCGAACTTGAT-TATAT
62261196 TTTTGAATCA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 24 0.49
28 20 0.41
29 5 0.10
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAACTTGATTATAT
Found at i:62273332 original size:40 final size:40
Alignment explanation
Indices: 62273273--62273484 Score: 268
Period size: 40 Copynumber: 5.3 Consensus size: 40
62273263 CATTTGAATG
*
62273273 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
62273313 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
62273353 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
62273393 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
62273433 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
62273473 ATATCC-GGCTAA
1 ATATCCGGGCTAA
62273485 ATTCCGAAGA
Statistics
Matches: 153, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 7 0.05
40 143 0.93
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:62281741 original size:40 final size:40
Alignment explanation
Indices: 62281663--62281871 Score: 250
Period size: 40 Copynumber: 5.3 Consensus size: 40
62281653 CATTTGAATG
62281663 ATATCCGGG-TAAG-CCCGAAGGCATTT-TGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
62281700 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
62281740 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
62281780 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
62281820 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
62281860 ATATCC-GGCTAA
1 ATATCCGGGCTAA
62281872 ATTCCGAAGA
Statistics
Matches: 153, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
37 8 0.05
38 4 0.03
39 20 0.13
40 118 0.77
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:62290719 original size:13 final size:13
Alignment explanation
Indices: 62290698--62290730 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
62290688 GGTTGTTTAT
*
62290698 TAAACTAATTAAC
1 TAAATTAATTAAC
62290711 TAAATTAATTAAC
1 TAAATTAATTAAC
62290724 T-AATTAA
1 TAAATTAA
62290731 ACTAAAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAATTAATTAAC
Found at i:62293668 original size:6 final size:6
Alignment explanation
Indices: 62293657--62293690 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
62293647 AAAAAATAAT
62293657 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
62293691 GATAGGAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:62304176 original size:18 final size:18
Alignment explanation
Indices: 62304143--62304177 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62304133 TATCAGAACT
62304143 AGAATCAAAATGAGAATC
1 AGAATCAAAATGAGAATC
* *
62304161 AGAATCAGAATTAGAAT
1 AGAATCAAAATGAGAAT
62304178 GTGAATGCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.09, G:0.17, T:0.20
Consensus pattern (18 bp):
AGAATCAAAATGAGAATC
Found at i:62304332 original size:27 final size:26
Alignment explanation
Indices: 62304295--62304361 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
62304285 AGTATGACTG
*
62304295 CCAGAACAGATATTGT-GACAGAGTCA
1 CCAGAACAGATATTGTAG-CAGAGCCA
*
62304321 CCAGATACAGATACTGTAGCAGAGCCA
1 CCAGA-ACAGATATTGTAGCAGAGCCA
*
62304348 CCAGAACTGATATT
1 CCAGAACAGATATT
62304362 TGTGGTATGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 12 0.34
27 22 0.63
28 1 0.03
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTAGCAGAGCCA
Found at i:62304589 original size:22 final size:22
Alignment explanation
Indices: 62304561--62304625 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
62304551 GCAAATACGT
*
62304561 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
62304583 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
62304605 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
62304626 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:62305044 original size:27 final size:27
Alignment explanation
Indices: 62305014--62305370 Score: 445
Period size: 27 Copynumber: 13.2 Consensus size: 27
62305004 GGGCAAAATG
* *
62305014 GTAATTTTACCCCAC-GAGGGTATCTT-A
1 GTAATTCTACCCTACAG-GGGTAT-TTCA
62305041 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
62305068 GTATTTCAACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
62305095 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
62305122 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
62305148 GATAATTCTACCCTACAGGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
62305176 GTAATTCTACCCTACAGGGGTATTTCT
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
62305203 GTAATTCTACCTTATAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
62305229 GATAATTCTACCTTACAGGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
62305257 GTAATTTTACCCTATAGGGGTATGTT-G
1 GTAATTCTACCCTACAGGGGTAT-TTCA
* * *
62305284 GTAATTCTACCTTACAGGGATATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
62305311 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
62305338 GTAATTCTACCCTATAAAGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
62305365 GTAATT
1 GTAATT
62305371 TTGTAAATCG
Statistics
Matches: 290, Mismatches: 32, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.02
27 279 0.96
28 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:62307543 original size:11 final size:12
Alignment explanation
Indices: 62307513--62307546 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
62307503 GTATATTTAC
62307513 TTATTATATAAG
1 TTATTATATAAG
62307525 TATATTAT-TAAG
1 T-TATTATATAAG
62307537 TTATTATATA
1 TTATTATATA
62307547 TATATAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:62312702 original size:27 final size:26
Alignment explanation
Indices: 62312654--62312892 Score: 282
Period size: 27 Copynumber: 8.9 Consensus size: 26
62312644 GTGAGGCTGC
* *
62312654 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGA-A
62312681 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
62312707 CAGATATCTGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
*
62312734 CAGATATTTGTGGCATAGCCACCAGAA
1 CAGATA-TTGTGGCAGAGCCACCAGAA
* *
62312761 TAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
* *
62312788 CAGATAATCGTGGCATAGCCACCAGAA
1 CAGAT-ATTGTGGCAGAGCCACCAGAA
* *
62312815 CAGATAATCGTGGCATAGCCACCAGAA
1 CAGAT-ATTGTGGCAGAGCCACCAGAA
*
62312842 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
*
62312869 CAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
62312893 AGACGCCTCC
Statistics
Matches: 189, Mismatches: 16, Indels: 14
0.86 0.07 0.06
Matches are distributed among these distances:
26 11 0.06
27 172 0.91
28 6 0.03
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:62312758 original size:81 final size:82
Alignment explanation
Indices: 62312672--62312892 Score: 351
Period size: 81 Copynumber: 2.7 Consensus size: 82
62312662 GTGACGAAGT
* * *
62312672 CACCAGATACAGATAT-TGTGGCAGAGCCACCAGAACAGAT-ATCTGTGGCAGAGCCACCAGATC
1 CACCAGA-ACAGATATATGTGGCAGAGCCACCAGATCAGATAATCTGTGGCATAGCCACCAGAAC
* *
62312735 AGATATTTGTGGCATAGC
65 AGATAATCGTGGCATAGC
*
62312753 CACCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATAATC-GTGGCATAGCCACCAGAACA
1 CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCTGTGGCATAGCCACCAGAACA
62312817 GATAATCGTGGCATAGC
66 GATAATCGTGGCATAGC
62312834 CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAAT-TGTGGCATAGCCACCA
1 CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCTGTGGCATAGCCACCA
62312893 AGACGCCTCC
Statistics
Matches: 130, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
80 7 0.05
81 120 0.92
82 3 0.02
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (82 bp):
CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCTGTGGCATAGCCACCAGAACA
GATAATCGTGGCATAGC
Found at i:62314549 original size:26 final size:26
Alignment explanation
Indices: 62314513--62314620 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
62314503 TGAAATTCCC
*
62314513 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
62314539 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
62314565 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
62314591 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
62314617 ATCA
1 ATCA
62314621 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:62324066 original size:27 final size:27
Alignment explanation
Indices: 62324016--62324068 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
62324006 TAGTAACAGT
* *
62324016 TGGGCCTAGCCCATTAACAGAATCAGG
1 TGGGCCTAGCCCAGTAACAAAATCAGG
62324043 TGGGCCTAAGCCCAGT-ACAAAATCAG
1 TGGGCCT-AGCCCAGTAACAAAATCAG
62324069 TATCAGATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.17
Consensus pattern (27 bp):
TGGGCCTAGCCCAGTAACAAAATCAGG
Found at i:62324258 original size:22 final size:22
Alignment explanation
Indices: 62324209--62324251 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
62324199 CACAAAGTCA
*
62324209 ACAGGATGGCTCAATGCCGTAC
1 ACAGGATGGCTCAACGCCGTAC
62324231 ACAGGATGGCTCAACGCCGTA
1 ACAGGATGGCTCAACGCCGTA
62324252 GTCAGGACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.16
Consensus pattern (22 bp):
ACAGGATGGCTCAACGCCGTAC
Found at i:62324538 original size:27 final size:27
Alignment explanation
Indices: 62324497--62324579 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
62324487 CGGAACATAA
** *
62324497 GGGCATAATCATCATTCTACCATACAG
1 GGGCATAATGGTCATTTTACCATACAG
* * *
62324524 GGGTATAATGGTCATTTTACCCTACAA
1 GGGCATAATGGTCATTTTACCATACAG
*
62324551 GGGCATTATGGTCATTTTACACATA-AG
1 GGGCATAATGGTCATTTTAC-CATACAG
62324578 GG
1 GG
62324580 TATTTTCGTA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
27 42 0.93
28 3 0.07
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (27 bp):
GGGCATAATGGTCATTTTACCATACAG
Found at i:62324855 original size:19 final size:19
Alignment explanation
Indices: 62324822--62324859 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
62324812 CGTGTGGGGC
62324822 CACGAGCCCATTAGGCCCA
1 CACGAGCCCATTAGGCCCA
62324841 CACGA-CCCATCTAGGCCCA
1 CACGAGCCCAT-TAGGCCCA
62324860 ACGTGGCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.26, C:0.45, G:0.18, T:0.11
Consensus pattern (19 bp):
CACGAGCCCATTAGGCCCA
Found at i:62328294 original size:27 final size:26
Alignment explanation
Indices: 62328264--62328439 Score: 156
Period size: 27 Copynumber: 6.5 Consensus size: 26
62328254 AAATTGTACA
* *
62328264 GCACTAAGGGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
62328291 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
62328318 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
62328345 GCACTAAGTGTGCGAGTTGGACTATGTG
1 GCACTAAGTGTGCGA-TT-GACTATGTG
* * *
62328373 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
62328400 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
62328427 GCACTGAGTGTGC
1 GCACTAAGTGTGC
62328440 AGGCTCAATA
Statistics
Matches: 127, Mismatches: 17, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.78
28 27 0.21
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:62328378 original size:82 final size:81
Alignment explanation
Indices: 62328264--62328419 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
62328254 AAATTGTACA
* *
62328264 GCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
62328328 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
62328345 GCACTAAGTGTGCGAGTTGGACTATGTGGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
62328410 TGCGAGTTGA
65 TGCGAATTGA
62328420 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:62328387 original size:55 final size:55
Alignment explanation
Indices: 62328264--62328439 Score: 173
Period size: 54 Copynumber: 3.2 Consensus size: 55
62328254 AAATTGTACA
* * **
62328264 GCACTAAGGGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAAT-GAATATGAT
1 GCACTAAGTGTGCGAATT-GACTATGTAGCACTAAGTGTGCGAGTTGGAATATGAT
* ** *
62328318 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGGACTATG-T
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGGAATATGAT
* * * *
62328372 GGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTT-GATTAT-AT
1 -GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGGAATATGAT
*
62328426 AGCACTGAGTGTGC
1 -GCACTAAGTGTGC
62328440 AGGCTCAATA
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
54 54 0.53
55 48 0.47
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (55 bp):
GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGGAATATGAT
Found at i:62328431 original size:82 final size:81
Alignment explanation
Indices: 62328260--62328439 Score: 209
Period size: 82 Copynumber: 2.2 Consensus size: 81
62328250 GATTAAATTG
* * *
62328260 TACAGCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
62328325 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
62328341 TGCGGCACTAAGTGTGCGAGTTGGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
62328405 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
62328423 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
62328440 AGGCTCAATA
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:62332864 original size:26 final size:26
Alignment explanation
Indices: 62332815--62332867 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
62332805 CAGTAATAGT
* *
62332815 TGGGCCTAGCCCATTAACACAATCAG
1 TGGGCCTAGCCCAGTAACAAAATCAG
62332841 TGGGCCTAAGCCCAGT-ACAAAATCAG
1 TGGGCCT-AGCCCAGTAACAAAATCAG
62332867 T
1 T
62332868 ATCAGATGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (26 bp):
TGGGCCTAGCCCAGTAACAAAATCAG
Found at i:62333324 original size:27 final size:27
Alignment explanation
Indices: 62333294--62333359 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
62333284 CATTCAACCA
* *
62333294 TACAGGGGTATTATAG-TCATTTTACCC
1 TACAAGGGTATTA-AGATCATTTTACAC
* * *
62333321 TACATGGGCATTACGATCATTTTACAC
1 TACAAGGGTATTAAGATCATTTTACAC
62333348 TACAAGGGTATT
1 TACAAGGGTATT
62333360 TCAGTAATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (27 bp):
TACAAGGGTATTAAGATCATTTTACAC
Found at i:62339641 original size:41 final size:41
Alignment explanation
Indices: 62339535--62339722 Score: 268
Period size: 41 Copynumber: 4.5 Consensus size: 41
62339525 AGCGGCGTTT
* *
62339535 TTTTGAAAAAAGCGCCGCTAAAAACCAGAACTTTTAGCGGCGC
1 TTTT-AAAAAA-CGCCGCTAAAGACCAGGACTTTTAGCGGCGC
* *
62339578 TTTTAAAAAAACACCGCAAAAGACCAGGACTTTTAGCGGCGC
1 TTTT-AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGC
*
62339620 TTTTAAAAAACGCCACTAAAGACCAGGACTTTTAGCGGCGC
1 TTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGC
* *
62339661 TTTTAGAAAACGCCGCTAAAGACCAGGACTTTTAACGGCGC
1 TTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGC
62339702 TTTTAAAAAAAACGCCGCTAA
1 TTTT--AAAAAACGCCGCTAA
62339723 TTTGCCCAGT
Statistics
Matches: 131, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
41 76 0.58
42 31 0.24
43 24 0.18
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (41 bp):
TTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGC
Found at i:62340040 original size:21 final size:21
Alignment explanation
Indices: 62340016--62340063 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
62340006 TTCTGTTCTG
*
62340016 CTCCGCCTCCCTCGCTACTGC
1 CTCCGCCTCCCGCGCTACTGC
*
62340037 CTCCGCCTCCCGCGCTGCTGC
1 CTCCGCCTCCCGCGCTACTGC
62340058 CTCCGC
1 CTCCGC
62340064 TCTAAGTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.58, G:0.19, T:0.21
Consensus pattern (21 bp):
CTCCGCCTCCCGCGCTACTGC
Found at i:62343772 original size:12 final size:12
Alignment explanation
Indices: 62343755--62343780 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62343745 GTCATCCTCC
62343755 TCATCAGATTCA
1 TCATCAGATTCA
62343767 TCATCAGATTCA
1 TCATCAGATTCA
62343779 TC
1 TC
62343781 CCTCGATCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:62345627 original size:9 final size:9
Alignment explanation
Indices: 62345613--62345766 Score: 137
Period size: 9 Copynumber: 16.1 Consensus size: 9
62345603 ATGTATTAGT
62345613 TAAGTTATG
1 TAAGTTATG
62345622 TAAGTTGTTATG
1 TAA---GTTATG
*
62345634 TACGTTATG
1 TAAGTTATG
*
62345643 TGAGTTATG
1 TAAGTTATG
*
62345652 TAAATTATG
1 TAAGTTATG
62345661 TAAGTTATG
1 TAAGTTATG
*
62345670 TGAGTTATG
1 TAAGTTATG
62345679 TAAGTTGTTATG
1 TAA---GTTATG
*
62345691 TAAATTATG
1 TAAGTTATG
62345700 TAAGTTATG
1 TAAGTTATG
*
62345709 TGAGTTATG
1 TAAGTTATG
62345718 TAAGTTGTTATG
1 TAA---GTTATG
*
62345730 TAAATTATG
1 TAAGTTATG
*
62345739 TAAGTTATA
1 TAAGTTATG
* *
62345748 TGAGTTATT
1 TAAGTTATG
62345757 TAAGTTATG
1 TAAGTTATG
62345766 T
1 T
62345767 GATTTATTTA
Statistics
Matches: 117, Mismatches: 19, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
9 91 0.78
12 26 0.22
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:62345706 original size:57 final size:57
Alignment explanation
Indices: 62345615--62345723 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 57
62345605 GTATTAGTTA
** *
62345615 AGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTG
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTAAATTATGTAAGTTATGTG
* *
62345672 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTAAATTATGTAAGTT
62345724 GTTATGTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (57 bp):
AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTAAATTATGTAAGTTATGTG
Found at i:62345761 original size:39 final size:39
Alignment explanation
Indices: 62345646--62345762 Score: 216
Period size: 39 Copynumber: 3.0 Consensus size: 39
62345636 CGTTATGTGA
62345646 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
62345685 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
* *
62345724 GTTATGTAAATTATGTAAGTTATATGAGTTATTTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
62345763 ATGTGATTTA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (39 bp):
GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
Found at i:62347553 original size:183 final size:184
Alignment explanation
Indices: 62347238--62347607 Score: 688
Period size: 183 Copynumber: 2.0 Consensus size: 184
62347228 CCTAGAATAG
*
62347238 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAAACTTTATCTA
1 ATGTAAGATTATAAAAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAAACTTTATCTA
* * *
62347303 TATCAGTACCAAATATTAATTTGAAGATTAAATGGCAGCTTCAGTTGAACCGATAGTTGCTGGAG
66 TATCAGTACCAAATATTAATTTGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCAGGAG
62347368 GAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 GAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
62347422 ATGTAAGATTATAAAAGTAGCACCAAATATATTTCAGTTTAAGCAAATAT-AAAAACTTTATCTA
1 ATGTAAGATTATAAAAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAAACTTTATCTA
62347486 TATCAGTACCAAATATTAATTTGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCAGGAG
66 TATCAGTACCAAATATTAATTTGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCAGGAG
*
62347551 GAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAGTACAGACAC
131 GAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
62347605 ATG
1 ATG
62347608 GAACTATATC
Statistics
Matches: 181, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
183 132 0.73
184 49 0.27
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (184 bp):
ATGTAAGATTATAAAAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAAACTTTATCTA
TATCAGTACCAAATATTAATTTGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCAGGAG
GAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
Found at i:62347697 original size:14 final size:13
Alignment explanation
Indices: 62347678--62347707 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
62347668 CAATATAATT
62347678 TTACTTCATATATA
1 TTACTTCATATA-A
62347692 TTACTTCATATAA
1 TTACTTCATATAA
62347705 TTA
1 TTA
62347708 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:62350244 original size:29 final size:28
Alignment explanation
Indices: 62350207--62350278 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
62350197 TTAATCAAAA
* *
62350207 CTCTAAACCTTAAACCATTAAACTATATC
1 CTCTAAACCTTAAACC-CTAAAATATATC
62350236 C-CTATAACCTTAAACCCTAAAATATATC
1 CTCTA-AACCTTAAACCCTAAAATATATC
*
62350264 CTCTAAACCCTAAAC
1 CTCTAAACCTTAAAC
62350279 TATATCCCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 23 0.61
29 15 0.39
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.28
Consensus pattern (28 bp):
CTCTAAACCTTAAACCCTAAAATATATC
Found at i:62350270 original size:21 final size:21
Alignment explanation
Indices: 62350238--62350290 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
62350228 ACTATATCCC
*
62350238 TATAACCT-TAAACCCTAAAA
1 TATATCCTCTAAACCCTAAAA
*
62350258 TATATCCTCTAAACCCTAAAC
1 TATATCCTCTAAACCCTAAAA
*
62350279 TATATCCCCTAA
1 TATATCCTCTAA
62350291 CCATAAACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 7 0.24
21 22 0.76
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (21 bp):
TATATCCTCTAAACCCTAAAA
Found at i:62350487 original size:49 final size:49
Alignment explanation
Indices: 62350428--62350577 Score: 194
Period size: 49 Copynumber: 3.0 Consensus size: 49
62350418 CTTAAACCAT
62350428 TAAACTATATCCCTATAACCTTAAACCCTAAAATATATCCCCTAAACCC
1 TAAACTATATCCCTATAACCTTAAACCCTAAAATATATCCCCTAAACCC
*
62350477 TAAATTATATCCCTATAACCTTAAACCCTAAAGTATATATATCCCCTAAACCC
1 TAAACTATATCCCTATAACCTTAAACCCT-AA--A-ATATATCCCCTAAACCC
* * * * *
62350530 TAAACTATAT-CCTCTAACCATAAACCATAAAATACTAACCCTTAAACC
1 TAAACTATATCCCTATAACCTTAAACCCTAAAATA-TATCCCCTAAACC
62350578 TTAACCACAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
48 3 0.03
49 40 0.45
50 2 0.02
51 2 0.02
52 16 0.18
53 26 0.29
ACGTcount: A:0.42, C:0.30, G:0.01, T:0.27
Consensus pattern (49 bp):
TAAACTATATCCCTATAACCTTAAACCCTAAAATATATCCCCTAAACCC
Done.