Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 238 of 343
Found at i:78320099 original size:27 final size:26
Alignment explanation
Indices: 78320064--78320141 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 26
78320054 GGGCATATTC
*
78320064 GTCATTTTACCATACAGGGGTATTACG
1 GTCACTTTACC-TACAGGGGTATTACG
78320091 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCACTTTA-CCTACAGGGG-TATTACG
*
78320118 GTCACTTTACCTAATAGGGGTATT
1 GTCACTTTACCT-ACAGGGGTATT
78320142 TTAGTCATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
26 4 0.09
27 38 0.84
28 3 0.07
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGTATTACG
Found at i:78320212 original size:27 final size:27
Alignment explanation
Indices: 78320182--78320233 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
78320172 GTAAATCTAC
78320182 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
78320209 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
78320234 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:78320330 original size:54 final size:54
Alignment explanation
Indices: 78320272--78320411 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
78320262 TGTAAATTAG
*
78320272 GGGTATTTTTGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTAGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* * * *
78320326 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAA
** *
78320380 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTAGTAATTTTACAAATTGAGGGTA
78320412 AAATAGTAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 73 0.97
55 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:78320383 original size:81 final size:82
Alignment explanation
Indices: 78320159--78320396 Score: 212
Period size: 81 Copynumber: 2.9 Consensus size: 82
78320149 TTTCATCCTA
* * * ** * ** *
78320159 CAAGGGTGTTTTGGTAAATCTACAAACCAAAGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
* * *
78320224 CTA-TAATTTTTAGAAAGT
66 C-AGTAA-TTTCACAAAGC
* ** * * ***
78320242 CAAGGGTATTTCT-GTAACTTTGTAAATTAGGGGTATTTTTGTAATTTTACAAATTGAGGGTATT
1 CAAGGGTATTT-TGGTAAATTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATT
*
78320306 TCGGTAATTTCACAAA-C
65 TCAGTAATTTCACAAAGC
* *
78320323 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
*
78320388 TAGTAATTT
66 CAGTAATTT
78320397 TGTAAATCGA
Statistics
Matches: 121, Mismatches: 31, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
80 1 0.01
81 62 0.51
82 7 0.06
83 50 0.41
84 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (82 bp):
CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
CAGTAATTTCACAAAGC
Found at i:78320409 original size:27 final size:27
Alignment explanation
Indices: 78320190--78320465 Score: 162
Period size: 27 Copynumber: 10.1 Consensus size: 27
78320180 ACAAACCAAA
* * * *
78320190 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTATAAATCAAG
*
78320217 GGTATTTCTA-TAATTTTTAGAAAGTCAAG
1 GGTATTT-TAGTAA-TTTTATAAA-TCAAG
* * * *
78320246 GGTATTTCT-GTAACTTTGTAAATTAGG
1 GGTATTT-TAGTAATTTTATAAATCAAG
* * **
78320273 GGTATTTTTGTAATTTTACAAATTGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
** * * *
78320300 GGTATTTCGGTAATTTCACAAACCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* * *
78320327 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTAGTAATTTTATAAATC-AAG
* * *
78320354 GGTATTTTGGTAATTTTACAAACCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* *
78320381 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
*** *
78320408 GGTAAAATAGTAATTCTATAAATCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
**** * *
78320435 GGTAAAACAGTAATTCTATAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
78320462 GGTA
1 GGTA
78320466 AAACGGTAAT
Statistics
Matches: 204, Mismatches: 38, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
26 2 0.01
27 172 0.84
28 15 0.07
29 15 0.07
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTATAAATCAAG
Found at i:78320421 original size:54 final size:54
Alignment explanation
Indices: 78320361--78320586 Score: 191
Period size: 54 Copynumber: 4.2 Consensus size: 54
78320351 AGGGGTATTT
* *** * *
78320361 TGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAA
1 TGGTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
* * * *
78320415 TAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
* ** * * * *
78320469 CGGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAGTCGAGGGTAAAA
1 TGGTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
* * * ** * * * * * *
78320523 CGATAATTTTGTAAATCAGGGGTAAAATGGTAATTCTGTAAATTGGGGGTAAAA
1 TGGTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
*
78320577 CGGTAATTCT
1 TGGTAATTCT
78320587 GTAAATTGGG
Statistics
Matches: 147, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 147 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.31
Consensus pattern (54 bp):
TGGTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
Found at i:78320448 original size:81 final size:80
Alignment explanation
Indices: 78320363--78320592 Score: 199
Period size: 81 Copynumber: 2.9 Consensus size: 80
78320353 GGGTATTTTG
**** * *
78320363 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATA
1 GTAATTTTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATA
78320428 AATCAAGGGTAAAAC
66 AATCAAGGGTAAAAC
* * * * * * *
78320443 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGT
1 -GTAATTTTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTAT
* *
78320508 AAGTCGAGGGTAAAAC
65 AAATCAAGGGTAAAAC
** * * ** *** ** *
78320524 GATAATTTTGTAAATCAGGGGTAAAATGGTAATTCTGTAAATTGGGGGTAAAACGGTAATTCTGT
1 G-TAATTTTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTAT
78320589 AAAT
65 AAAT
78320593 TGGGGGTACT
Statistics
Matches: 123, Mismatches: 25, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
80 1 0.01
81 122 0.99
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (80 bp):
GTAATTTTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATA
AATCAAGGGTAAAAC
Found at i:78320600 original size:27 final size:27
Alignment explanation
Indices: 78320390--78320592 Score: 255
Period size: 27 Copynumber: 7.5 Consensus size: 27
78320380 GGGTATTTTA
* **
78320390 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
78320417 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
78320444 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
78320471 GTAATTCTGTAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
78320498 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
78320525 ATAATTTTGTAAATC-AGGGGTAAAATG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* *
78320552 GTAATTCTGTAAATTGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
78320579 GTAATTCTGTAAAT
1 GTAATTCTGTAAAT
78320593 TGGGGGTACT
Statistics
Matches: 153, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 152 0.99
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:78320600 original size:54 final size:54
Alignment explanation
Indices: 78320390--78320592 Score: 289
Period size: 54 Copynumber: 3.8 Consensus size: 54
78320380 GGGTATTTTA
* ** * **
78320390 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATG
*
78320444 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATG
* * * *
78320498 GTAATTCTGTAAGTCGAGGGTAAAACGATAATTTTGTAAATCAGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATG
* *
78320552 GTAATTCTGTAAATTGGGGGTAAAACGGTAATTCTGTAAAT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAAT
78320593 TGGGGGTACT
Statistics
Matches: 132, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 132 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATG
Found at i:78320678 original size:26 final size:27
Alignment explanation
Indices: 78320606--78320703 Score: 94
Period size: 27 Copynumber: 3.6 Consensus size: 27
78320596 GGGTACTTTG
* * *
78320606 GTAATTTTACAAGTCGAA-GGTATTTTA
1 GTAATTTTACAA-ACTAAGGGTATTTCA
*
78320633 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGGGTATTTCA
*
78320660 GT-ATTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGGGTATTTCA
*
78320686 GTAATTTTAGTAAACTAA
1 GTAATTTTA-CAAACTAA
78320704 AGTATTCTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
26 23 0.39
27 29 0.49
28 7 0.12
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGGGTATTTCA
Found at i:78320708 original size:27 final size:26
Alignment explanation
Indices: 78320625--78320709 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
78320615 CAAGTCGAAG
* * *
78320625 GTATTTTAGTAATTTTACAAA-TCGAGG
1 GTATTTCAGT-ATTTTACAAACT-AAGA
*
78320652 GTATTTCAGTATTTTACAAACTAAGG
1 GTATTTCAGTATTTTACAAACTAAGA
* *
78320678 GTATTTCGGTAATTTTAGTAAACTAA-A
1 GTATTTCAGT-ATTTTA-CAAACTAAGA
78320705 GTATT
1 GTATT
78320710 CTAAACAGGG
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
26 22 0.44
27 21 0.42
28 7 0.14
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.41
Consensus pattern (26 bp):
GTATTTCAGTATTTTACAAACTAAGA
Found at i:78322462 original size:31 final size:31
Alignment explanation
Indices: 78322424--78322502 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
78322414 CAGCACATAT
*
78322424 TGGGCCGAAGCCTTTACATTTTTCATATCAC
1 TGGGCCGAAGCCTTTACATTATTCATATCAC
*
78322455 TGGGCCGAAGCCTTTTCATTATTCATATCAC
1 TGGGCCGAAGCCTTTACATTATTCATATCAC
*
78322486 TGGGCCGAACCCTTTAC
1 TGGGCCGAAGCCTTTAC
78322503 TATAACAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.33
Consensus pattern (31 bp):
TGGGCCGAAGCCTTTACATTATTCATATCAC
Found at i:78322734 original size:25 final size:26
Alignment explanation
Indices: 78322719--78322815 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
78322709 CTCTTTTAAT
78322719 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTTGATA
78322745 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTTGATA
* *
78322771 AACTGGGGC-AAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTTGATA
* *
78322796 AACTAGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
78322816 GCACTTCCTC
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 32 0.48
26 35 0.52
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTTGATA
Found at i:78322879 original size:11 final size:11
Alignment explanation
Indices: 78322863--78322901 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
78322853 TATATAAATT
78322863 TATCATGTGCA
1 TATCATGTGCA
*
78322874 TATCA--TACA
1 TATCATGTGCA
78322883 TATCATGTGCA
1 TATCATGTGCA
78322894 TATCATGT
1 TATCATGT
78322902 CAAATAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:78324222 original size:12 final size:12
Alignment explanation
Indices: 78324205--78324229 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78324195 TCCTACCTAT
78324205 TAACAATATTTA
1 TAACAATATTTA
78324217 TAACAATATTTA
1 TAACAATATTTA
78324229 T
1 T
78324230 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:78331170 original size:25 final size:24
Alignment explanation
Indices: 78331142--78331225 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
78331132 CTGGAGTCCT
78331142 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGC-AA
*
78331167 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTAATAAACTGGGGCAA
* * *
78331192 AGCCCTTTTCAGTAAACTAGGGCAT
1 AGCCCTTTT-AATAAACTGGGGCAA
78331217 AGCCCTTTT
1 AGCCCTTTT
78331226 GCACTTCCCC
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 5 0.10
25 37 0.73
26 9 0.18
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:78331191 original size:26 final size:26
Alignment explanation
Indices: 78331155--78331225 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 26
78331145 CTCTTTTAAT
*
78331155 AACTGGGGCAAAAGCCCTTTTTGA-TA
1 AACTGGGGC-AAAGCCCTTTTTCAGTA
78331181 AACTGGGGCAAAGCCC-TTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTTCAGTA
* *
78331206 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
78331226 GCACTTCCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
24 5 0.12
25 23 0.57
26 12 0.30
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCAGTA
Found at i:78331289 original size:11 final size:11
Alignment explanation
Indices: 78331273--78331320 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
78331263 TATATGAATT
78331273 TATCATGTGCA
1 TATCATGTGCA
*
78331284 TATCA--TACA
1 TATCATGTGCA
78331293 TATCATGTGCA
1 TATCATGTGCA
78331304 TATCATGT-CA
1 TATCATGTGCA
*
78331314 AATCATG
1 TATCATG
78331321 CATATCAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 8 0.25
11 16 0.50
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:78347398 original size:13 final size:13
Alignment explanation
Indices: 78347382--78347424 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
78347372 TAATATATGT
*
78347382 AATCGAAATATCA
1 AATCAAAATATCA
78347395 AATCAAAATATCA
1 AATCAAAATATCA
78347408 AATCAAAATATCA
1 AATCAAAATATCA
78347421 AATC
1 AATC
78347425 CATAAAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.58, C:0.16, G:0.02, T:0.23
Consensus pattern (13 bp):
AATCAAAATATCA
Found at i:78349021 original size:5 final size:5
Alignment explanation
Indices: 78349007--78349052 Score: 85
Period size: 5 Copynumber: 9.4 Consensus size: 5
78348997 TTATTTAAAA
78349007 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
78349053 ATACATCATT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.10
5 37 0.90
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:78349996 original size:33 final size:33
Alignment explanation
Indices: 78349949--78350021 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
78349939 TTTAAAGATA
*
78349949 AAAAATAGAGAACTTAATCAATATTTAATTTAAT
1 AAAAATAGAGAACTTAAGCAA-ATTTAATTTAAT
* * *
78349983 AAAAATA-ATAACTTAAGGAAATTTATTTTAAT
1 AAAAATAGAGAACTTAAGCAAATTTAATTTAAT
*
78350015 AAGAATA
1 AAAAATA
78350022 TATTTTATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 17 0.50
33 10 0.29
34 7 0.21
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (33 bp):
AAAAATAGAGAACTTAAGCAAATTTAATTTAAT
Found at i:78351433 original size:21 final size:21
Alignment explanation
Indices: 78351408--78351459 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
78351398 CCCGTATAGT
*
78351408 CCACACGGCCTAACCCAAAAC
1 CCACACGCCCTAACCCAAAAC
*
78351429 CCACACGCCCTAGCCCAAAAC
1 CCACACGCCCTAACCCAAAAC
78351450 CCACACGCCC
1 CCACACGCCC
78351460 GTGTGGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.54, G:0.10, T:0.04
Consensus pattern (21 bp):
CCACACGCCCTAACCCAAAAC
Found at i:78353284 original size:221 final size:221
Alignment explanation
Indices: 78352896--78353337 Score: 769
Period size: 221 Copynumber: 2.0 Consensus size: 221
78352886 TTCTATGGAG
78352896 AAACCTTAAGAAAGACAAAGTCACCCATAGAGTACTCAATATCTTTTCTCTTCAGCTCTACATAA
1 AAACCTTAAGAAAGACAAAGTCACCCATAGAGTACTCAATATCTTTTCTCTTCAGCTCTACATAA
* * * * *
78352961 GACTTCTGTCTATCAGAAACTGCCTTCAGATTATCCATAATCATTCTAACATTATCTTTAGTCTC
66 GACTTCTGTCTATCAGAAACTACCTTCAGATGATCCATAATCATCCTAACATTATCTTCAATCTC
78353026 AGAAACCAACTCAGGACCCAAAACCCTACACTCACCCAACTCAATCCAACATAAC-GAAGTACGA
131 AGAAACCAACTCAGGACCCAAAACCCTACACTCACCCAACTCAATCCAACATAACAG-AGTACGA
78353090 CACTTACGGCCATACAAAGCCTCATAA
195 CACTTACGGCCATACAAAGCCTCATAA
*
78353117 AAACCTTAAGAAAGACAAAGTCACCCATAGAGTACTCAATATCTTTTCTCTTCAGCTCTGCATAA
1 AAACCTTAAGAAAGACAAAGTCACCCATAGAGTACTCAATATCTTTTCTCTTCAGCTCTACATAA
*
78353182 GACTTCTGTCTATCAGAAACTACCTTCAGATGATCCATAATCATCCTAACCTTATCTTCAATCTC
66 GACTTCTGTCTATCAGAAACTACCTTCAGATGATCCATAATCATCCTAACATTATCTTCAATCTC
** *
78353247 AGAAACCAACTCAGGACCCAAAACCCTACGTTCACCCAACTCAGTCCAACATAACAGAGTACGAC
131 AGAAACCAACTCAGGACCCAAAACCCTACACTCACCCAACTCAATCCAACATAACAGAGTACGAC
*
78353312 ACTTACGGTCATACAAAGCCTCATAA
196 ACTTACGGCCATACAAAGCCTCATAA
78353338 GGTGCCATCT
Statistics
Matches: 209, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
221 208 1.00
222 1 0.00
ACGTcount: A:0.36, C:0.29, G:0.10, T:0.25
Consensus pattern (221 bp):
AAACCTTAAGAAAGACAAAGTCACCCATAGAGTACTCAATATCTTTTCTCTTCAGCTCTACATAA
GACTTCTGTCTATCAGAAACTACCTTCAGATGATCCATAATCATCCTAACATTATCTTCAATCTC
AGAAACCAACTCAGGACCCAAAACCCTACACTCACCCAACTCAATCCAACATAACAGAGTACGAC
ACTTACGGCCATACAAAGCCTCATAA
Found at i:78357188 original size:16 final size:15
Alignment explanation
Indices: 78357169--78357217 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 15
78357159 AATAATATTT
78357169 ATAATATAGATACATA
1 ATAATA-AGATACATA
78357185 ATAATAATGAT--ATA
1 ATAATAA-GATACATA
78357199 AT-ATAA-ATACATA
1 ATAATAAGATACATA
78357212 ATAATA
1 ATAATA
78357218 TAAAAGAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
11 2 0.07
13 9 0.31
14 8 0.28
15 1 0.03
16 9 0.31
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (15 bp):
ATAATAAGATACATA
Found at i:78357218 original size:16 final size:16
Alignment explanation
Indices: 78357169--78357221 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
78357159 AATAATATTT
*
78357169 ATAATATAGATACATA
1 ATAATATAAATACATA
*
78357185 AT-A-AT-AAT-GAT-
1 ATAATATAAATACATA
78357196 ATAATATAAATACATA
1 ATAATATAAATACATA
78357212 ATAATATAAA
1 ATAATATAAA
78357222 AGAAATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 10
0.69 0.07 0.24
Matches are distributed among these distances:
11 2 0.07
12 3 0.10
13 4 0.14
14 5 0.17
15 3 0.10
16 12 0.41
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (16 bp):
ATAATATAAATACATA
Found at i:78357227 original size:21 final size:20
Alignment explanation
Indices: 78357184--78357229 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
78357174 ATAGATACAT
* * *
78357184 AATAATAATGATATAATATA
1 AATAATAATAATATAAAAGA
78357204 AATACATAATAATATAAAAGA
1 AATA-ATAATAATATAAAAGA
78357225 AATAA
1 AATAA
78357230 AACATAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (20 bp):
AATAATAATAATATAAAAGA
Found at i:78357228 original size:27 final size:27
Alignment explanation
Indices: 78357171--78357236 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
78357161 TAATATTTAT
* * * *
78357171 AATATAGATACATAATAATAATGATAT
1 AATATAAATACATAATAATAATAAAAA
*
78357198 AATATAAATACATAATAAT-ATAAAAG
1 AATATAAATACATAATAATAATAAAAA
78357224 AA-ATAAA-ACATAA
1 AATATAAATACATAA
78357237 AGAAAAAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 6 0.17
25 5 0.14
26 6 0.17
27 18 0.51
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (27 bp):
AATATAAATACATAATAATAATAAAAA
Found at i:78367258 original size:47 final size:47
Alignment explanation
Indices: 78367204--78367298 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
78367194 AGAAGAAAAT
78367204 TCACTATGTCGAAAATTTTAATCCTTACAAGAGGAATAGACTATGTC
1 TCACTATGTCGAAAATTTTAATCCTTACAAGAGGAATAGACTATGTC
78367251 TCACTATGTCGAAAATTTTAATCCTTACAAGAGGAATAGACTATGTC
1 TCACTATGTCGAAAATTTTAATCCTTACAAGAGGAATAGACTATGTC
78367298 T
1 T
78367299 ATTTATAGGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (47 bp):
TCACTATGTCGAAAATTTTAATCCTTACAAGAGGAATAGACTATGTC
Found at i:78367757 original size:22 final size:23
Alignment explanation
Indices: 78367712--78367757 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
78367702 TGAATAATTA
* *
78367712 TTTTAAAAACATTTATGAAGTTT
1 TTTTAAAAAAATTTATAAAGTTT
78367735 TTTTAAAAAAATTT-TAAA-TTT
1 TTTTAAAAAAATTTATAAAGTTT
78367756 TT
1 TT
78367758 ATGAAGTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 3 0.14
23 13 0.62
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (23 bp):
TTTTAAAAAAATTTATAAAGTTT
Found at i:78367967 original size:12 final size:12
Alignment explanation
Indices: 78367942--78367976 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
78367932 TCATTATACC
*
78367942 ATAGACAGACAG
1 ATAGACAGATAG
*
78367954 ATAGATAGATAG
1 ATAGACAGATAG
78367966 ATAGACAGATA
1 ATAGACAGATA
78367977 TGATTGCGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.51, C:0.09, G:0.23, T:0.17
Consensus pattern (12 bp):
ATAGACAGATAG
Found at i:78368228 original size:25 final size:25
Alignment explanation
Indices: 78368192--78368250 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
78368182 TTTCATTTTA
78368192 TTTTGA-TTACCCAACTATTAATTT
1 TTTTGACTTACCCAACTATTAATTT
78368216 TTTTGACTTACCCAACTATTAATTT
1 TTTTGACTTACCCAACTATTAATTT
78368241 TTTTGACTTA
1 TTTTGACTTA
78368251 GTCATTAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 6 0.18
25 28 0.82
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (25 bp):
TTTTGACTTACCCAACTATTAATTT
Found at i:78376409 original size:18 final size:19
Alignment explanation
Indices: 78376370--78376411 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 19
78376360 ATGGAGGTAA
78376370 TAAAATGTCCATAATAAAAT
1 TAAAATGT-CATAATAAAAT
78376390 TAAAATGT-ATAA-AAATAT
1 TAAAATGTCATAATAAA-AT
78376408 TAAA
1 TAAA
78376412 GTAAAGCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 3 0.14
18 10 0.48
20 8 0.38
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
TAAAATGTCATAATAAAAT
Found at i:78379998 original size:5 final size:5
Alignment explanation
Indices: 78379990--78380041 Score: 81
Period size: 5 Copynumber: 10.6 Consensus size: 5
78379980 ATTTTATGTT
78379990 ATATA ATATA ATAT- A-ATA ATATA ATATA ATATA ATATA ATAATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
78380039 ATA
1 ATA
78380042 ACATAATATC
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 35 0.80
6 5 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:78380010 original size:8 final size:8
Alignment explanation
Indices: 78379997--78380049 Score: 63
Period size: 8 Copynumber: 6.4 Consensus size: 8
78379987 GTTATATAAT
78379997 ATAATATA
1 ATAATATA
78380005 ATAATATAA
1 ATAATAT-A
78380014 TATAATATA
1 -ATAATATA
78380023 AT-ATAATA
1 ATAAT-ATA
78380031 ATAATATA
1 ATAATATA
*
78380039 ATAACATA
1 ATAATATA
78380047 ATA
1 ATA
78380050 TCATTTACTT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
7 2 0.05
8 27 0.68
9 4 0.10
10 7 0.17
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (8 bp):
ATAATATA
Found at i:78380010 original size:13 final size:13
Alignment explanation
Indices: 78379992--78380050 Score: 74
Period size: 13 Copynumber: 4.9 Consensus size: 13
78379982 TTTATGTTAT
78379992 ATAATATAATATA
1 ATAATATAATATA
78380005 ATAATAT-A-AT-
1 ATAATATAATATA
78380015 ATAATATAATATA
1 ATAATATAATATA
78380028 AT-A-ATAATATA
1 ATAATATAATATA
*
78380039 ATAACATAATAT
1 ATAATATAATAT
78380051 CATTTACTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
10 7 0.17
11 13 0.32
12 5 0.12
13 16 0.39
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATATAATATA
Found at i:78380016 original size:23 final size:21
Alignment explanation
Indices: 78379990--78380041 Score: 86
Period size: 23 Copynumber: 2.4 Consensus size: 21
78379980 ATTTTATGTT
78379990 ATATAATATAATATAATAATATA
1 ATATAATATAATATAAT-A-ATA
78380013 ATATAATATAATATAATAATA
1 ATATAATATAATATAATAATA
78380034 ATATAATA
1 ATATAATA
78380042 ACATAATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 11 0.38
22 1 0.03
23 17 0.59
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATAATATAATATAATAATA
Found at i:78380038 original size:34 final size:34
Alignment explanation
Indices: 78379990--78380088 Score: 109
Period size: 34 Copynumber: 3.0 Consensus size: 34
78379980 ATTTTATGTT
78379990 ATATAAT-ATAATATAATAATATAATATAATATA
1 ATATAATAATAATATAATAATATAATATAATATA
* * *
78380023 ATATAATAATAATATAATAACATAATATCATTTA
1 ATATAATAATAATATAATAATATAATATAATATA
*
78380057 CT-TAAATAATAAGTA-AATAAT-TAAT-TAATATA
1 ATAT-AATAATAA-TATAATAATATAATATAATATA
78380089 TGTATTTTAG
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
32 5 0.09
33 12 0.21
34 37 0.66
35 2 0.04
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (34 bp):
ATATAATAATAATATAATAATATAATATAATATA
Found at i:78381620 original size:22 final size:22
Alignment explanation
Indices: 78381593--78381638 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
78381583 GGTAAATGTG
78381593 TGAAATAATTAAAATTGTGAGA
1 TGAAATAATTAAAATTGTGAGA
*
78381615 TGAAATAATTGAAATTGTGAGA
1 TGAAATAATTAAAATTGTGAGA
78381637 TG
1 TG
78381639 CTATAGGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.33
Consensus pattern (22 bp):
TGAAATAATTAAAATTGTGAGA
Found at i:78382147 original size:48 final size:48
Alignment explanation
Indices: 78382095--78382363 Score: 213
Period size: 48 Copynumber: 5.6 Consensus size: 48
78382085 TATGTGTGCT
* *
78382095 AGTGTAAGACCATGTCTGGGACATGGCGTTAGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTAGCCATGATATGAGAGCC
* * ** * * *
78382143 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGATCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTAGCCATGATATGAGAGCC
* * * * * *
78382191 AGTGTAAGACTATGTCCGGGACATGGCATT-GACATTGATATGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATTAGCCA-TGATATGAGAGCC
* * * * * * *
78382239 AGTGTAAGACCATGTTTGGGTCATGGCATCAG-TATTA-AGAGAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATTAGCCATGATA-TG-AGAGCC
* * * *
78382287 AGTGTAAGACCATGTCTGGGACATGGCATTGGCC-TCAACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTAGCCAT-GATATGAGAGCC
* **
78382335 AATGTAAGACCATGTCTAAGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
78382364 CTATAATTTA
Statistics
Matches: 171, Mismatches: 43, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
46 1 0.01
47 5 0.03
48 161 0.94
49 3 0.02
50 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTAGCCATGATATGAGAGCC
Found at i:78382342 original size:144 final size:143
Alignment explanation
Indices: 78382082--78382350 Score: 308
Period size: 144 Copynumber: 1.9 Consensus size: 143
78382072 TGACATTGGG
* * * *
78382082 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCGTTAGCCACGATATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCAAGAGA-GAGAGCCAGTG
* *** * * *
78382147 TAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGATCCAGTGTAAGACTATGTCCGGGA
65 TAAGACCATGTCTGGAACATGGCATCGGCAATAACATGAGAGCCAATGTAAGACCATGTCCGGGA
78382212 CATGGCATTGACAT
130 CATGGCATTGACAT
* * ** *
78382226 TGATATGTGTGCTAGTGTAAGACCATGTTTGGGTCATGGCATCAGTATTAAGAGA-AGAGCTAGT
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAG--CCAAGAGAGAGAGCCAGT
* * * *
78382290 GTAAGACCATGTCTGGGACATGGCATTGGC-CTCAACATGTGAGCCAATGTAAGACCATGTC
64 GTAAGACCATGTCTGGAACATGGCATCGGCAAT-AACATGAGAGCCAATGTAAGACCATGTC
78382351 TAAGACATGG
Statistics
Matches: 102, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
143 1 0.01
144 97 0.95
146 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (143 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCAAGAGAGAGAGCCAGTGT
AAGACCATGTCTGGAACATGGCATCGGCAATAACATGAGAGCCAATGTAAGACCATGTCCGGGAC
ATGGCATTGACAT
Found at i:78382360 original size:96 final size:95
Alignment explanation
Indices: 78382092--78382364 Score: 271
Period size: 96 Copynumber: 2.8 Consensus size: 95
78382082 TGATATGTGT
* * * *
78382092 GCTAGTGTAAGACCATGTCTGGGACATGGCGTTAGCCACGATATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATATGTGAGCCAGTGTAAGACCATG
* * * *
78382157 TTTGGAACATGGCATCGGCAATGTTATGAGA
66 TTAGG-ACATGGCATCAGCAATGTAAAGAGA
* * * * * * * * *
78382188 TCCAGTGTAAGACTATGTCCGGGACATGGCATTGACATTGATATGTGTGCTAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATATGTGAGCCAGTGTAAGACCATG
* * *
78382253 TTTGGGTCATGGCATCAG-TAT-TAAGAGAAGA
66 -TTAGGACATGGCATCAGCAATGTAA-AG-AGA
* * *
78382284 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCAACATGTGAGCCAATGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATATGTGAGCCAGTGTAAGACCATG
*
78382349 TCTAAGACATGGCATC
66 T-TAGGACATGGCATC
78382365 TATAATTTAC
Statistics
Matches: 139, Mismatches: 34, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
94 2 0.01
95 4 0.03
96 129 0.93
97 4 0.03
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (95 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATATGTGAGCCAGTGTAAGACCATG
TTAGGACATGGCATCAGCAATGTAAAGAGA
Found at i:78390142 original size:18 final size:18
Alignment explanation
Indices: 78390119--78390156 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
78390109 AATATATATT
78390119 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
78390137 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
78390155 AA
1 AA
78390157 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:78390149 original size:13 final size:13
Alignment explanation
Indices: 78390133--78390157 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78390123 CAAGTACCCA
78390133 ACCCAACCCAATT
1 ACCCAACCCAATT
78390146 ACCCAACCCAAT
1 ACCCAACCCAAT
78390158 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:78390195 original size:5 final size:6
Alignment explanation
Indices: 78390182--78390240 Score: 82
Period size: 6 Copynumber: 9.5 Consensus size: 6
78390172 ATAATTTAAT
* *
78390182 AAATAA AAATAA AAATCTAA AACTAA AACTAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAATAA
78390232 AAATAA AAA
1 AAATAA AAA
78390241 ACATAAAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
6 44 0.90
8 5 0.10
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:78390242 original size:32 final size:32
Alignment explanation
Indices: 78390182--78390248 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
78390172 ATAATTTAAT
*
78390182 AAATAAAAATAAAAATCTAAAACTAAAAC-TAA
1 AAATAAAAATAAAAA-CTAAAAATAAAACATAA
78390214 AAATAAAAATAAAAA-TAAAAATAAAAAACATAA
1 AAATAAAAATAAAAACTAAAAAT--AAAACATAA
78390247 AA
1 AA
78390249 TTTTATACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
30 6 0.19
32 20 0.65
33 5 0.16
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (32 bp):
AAATAAAAATAAAAACTAAAAATAAAACATAA
Found at i:78390274 original size:9 final size:9
Alignment explanation
Indices: 78390260--78390327 Score: 91
Period size: 9 Copynumber: 7.6 Consensus size: 9
78390250 TTTATACAAA
78390260 TAATTCGGT
1 TAATTCGGT
78390269 TAATTCGGT
1 TAATTCGGT
78390278 TAATTCGGT
1 TAATTCGGT
* *
78390287 TAATTTGGG
1 TAATTCGGT
* *
78390296 TAATTTGGG
1 TAATTCGGT
78390305 TAATTCGGT
1 TAATTCGGT
*
78390314 TGATTCGGT
1 TAATTCGGT
78390323 TAATT
1 TAATT
78390328 TTATACTTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.22, C:0.07, G:0.25, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:78391229 original size:5 final size:5
Alignment explanation
Indices: 78391221--78391287 Score: 134
Period size: 5 Copynumber: 13.4 Consensus size: 5
78391211 TTTATGTTAC
78391221 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
78391271 ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT AT
78391288 CATTTACTTA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 62 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:78391364 original size:21 final size:20
Alignment explanation
Indices: 78391325--78391366 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
78391315 TAATTAATAT
* *
78391325 ATGTATTTTTATTTTACCAC
1 ATGTATTTTCATATTACCAC
78391345 ATGTATTTTCACTATTACCAC
1 ATGTATTTTCA-TATTACCAC
78391366 A
1 A
78391367 CATTTGTCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.48
Consensus pattern (20 bp):
ATGTATTTTCATATTACCAC
Found at i:78394764 original size:34 final size:35
Alignment explanation
Indices: 78394720--78394786 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
78394710 CAGTAAAATA
78394720 TTTTCCGTAAAATGATTT-CGGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
78394754 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
78394787 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:78402558 original size:12 final size:12
Alignment explanation
Indices: 78402543--78402567 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78402533 AGTTCACCGA
78402543 GGAGTGAAGGGG
1 GGAGTGAAGGGG
78402555 GGAGTGAAGGGG
1 GGAGTGAAGGGG
78402567 G
1 G
78402568 TGATGGTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.68, T:0.08
Consensus pattern (12 bp):
GGAGTGAAGGGG
Found at i:78404379 original size:17 final size:18
Alignment explanation
Indices: 78404345--78404383 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
78404335 TTGGTACATA
78404345 AATTTATACAAATCTTTT
1 AATTTATACAAATCTTTT
*
78404363 AATTATATA-AAATTTTTT
1 AATT-TATACAAATCTTTT
78404381 AAT
1 AAT
78404384 ATTTACTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTTATACAAATCTTTT
Found at i:78404816 original size:21 final size:20
Alignment explanation
Indices: 78404791--78404830 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
78404781 TCTTTTTGCG
78404791 GGTTTATATTTAGGATTTATT
1 GGTTTATATTT-GGATTTATT
* *
78404812 GGTTTCTATTTGGTTTTAT
1 GGTTTATATTTGGATTTAT
78404831 ATTAAAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.17, C:0.03, G:0.20, T:0.60
Consensus pattern (20 bp):
GGTTTATATTTGGATTTATT
Found at i:78407083 original size:24 final size:24
Alignment explanation
Indices: 78407056--78407103 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
78407046 TCAGTTTTGA
78407056 ATTCTAGGAAGTCTTTTAGATGAG
1 ATTCTAGGAAGTCTTTTAGATGAG
78407080 ATTCTAGGAAGTCTTTTAGATGAG
1 ATTCTAGGAAGTCTTTTAGATGAG
78407104 GAATAGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.38
Consensus pattern (24 bp):
ATTCTAGGAAGTCTTTTAGATGAG
Found at i:78414159 original size:40 final size:40
Alignment explanation
Indices: 78414092--78414335 Score: 255
Period size: 40 Copynumber: 6.1 Consensus size: 40
78414082 CGGAATTTAA
*
78414092 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGA-TATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACT-TAGC
* * *
78414132 CCGGTTAGAGTAACTCGCACAATTGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
78414172 CCGGATTTAGTAATTCGCACAAATGCCTTCGGGACGT-GC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
78414211 CCGGATATAGTAACTTGCACAAAGGCCTTTGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
78414251 CCGGGATATAGTAGCTCGCACGAATGCCTTCGGGACTTAGC
1 CC-GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* ** * *
78414292 CC-GAAATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCT-TCGGGACTTAGC
78414332 CCGG
1 CCGG
78414336 TTATCATCCG
Statistics
Matches: 169, Mismatches: 28, Indels: 13
0.80 0.13 0.06
Matches are distributed among these distances:
39 39 0.23
40 93 0.55
41 37 0.22
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:78415685 original size:10 final size:10
Alignment explanation
Indices: 78415658--78415693 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
78415648 AACATGAGAG
78415658 CTTTCTTTTT
1 CTTTCTTTTT
*
78415668 ATTT-TTTTT
1 CTTTCTTTTT
78415677 CTTTCTTTTT
1 CTTTCTTTTT
78415687 CTTTCTT
1 CTTTCTT
78415694 CTATTCGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:78422357 original size:40 final size:40
Alignment explanation
Indices: 78422290--78422531 Score: 258
Period size: 40 Copynumber: 6.0 Consensus size: 40
78422280 CGGAATTTAA
* *
78422290 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
78422330 CCGGTTAGAGTAACTCGCACAATTGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * ** *
78422370 CCGGATTTAGTAATTCATACAAATGCCTTCGGGACGT-GC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
78422409 CCGGATATAGTAACTTGCACAAAGGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
78422449 CCGGGATATAGTAGCTCGCACGAATGCCTTCGGGACTTAGC
1 CC-GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** * *
78422490 CCGGA-ATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCT-TCGGGACTTAGC
78422530 CC
1 CC
78422532 AGTTATCATC
Statistics
Matches: 167, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
39 36 0.22
40 95 0.57
41 36 0.22
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:78423873 original size:10 final size:10
Alignment explanation
Indices: 78423855--78423887 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
78423845 AACATGAGAG
*
78423855 CTTTCTTTTT
1 CTTTTTTTTT
78423865 CTTTTTTTTT
1 CTTTTTTTTT
78423875 C-TTTTTTTT
1 CTTTTTTTTT
78423884 CTTT
1 CTTT
78423888 CTTCTATTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:78444160 original size:40 final size:40
Alignment explanation
Indices: 78444105--78444286 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
78444095 TATTCGGATG
*
78444105 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
*
78444145 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
*
78444185 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
78444225 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACT
* *
78444265 ATATCC-GGCTAAATCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
78444287 TACTTGGGTT
Statistics
Matches: 132, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 13 0.10
40 117 0.89
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:78448567 original size:27 final size:27
Alignment explanation
Indices: 78448529--78448608 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
78448519 AACACGTCGG
*
78448529 GAAAGAAAAGCCTTTGTGGCGAAATGT
1 GAAAGAAAAGCCTTTGTGGCGAAATAT
* *
78448556 GAAAGAAAAGCCTTTTTGGTGAAATAT
1 GAAAGAAAAGCCTTTGTGGCGAAATAT
* *
78448583 GAAATG-AATGCCTTTGTGTC-AAATAT
1 GAAA-GAAAAGCCTTTGTGGCGAAATAT
78448609 TGAATGGATC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
26 6 0.13
27 38 0.84
28 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGGCGAAATAT
Found at i:78452641 original size:29 final size:29
Alignment explanation
Indices: 78452601--78452666 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
78452591 AATTGTATTC
* *
78452601 ATATGACCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* * *
78452630 ATATGGCCCATTAGTCCCAATTCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
78452659 ATATGGCC
1 ATATGGCC
78452667 TGTTCGGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:78455930 original size:39 final size:39
Alignment explanation
Indices: 78455887--78456083 Score: 324
Period size: 39 Copynumber: 5.1 Consensus size: 39
78455877 ATGCAAGACA
*
78455887 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
78455926 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
78455965 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
78456004 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * * *
78456043 CTGGAAATGTAT-CTGGTTAAAGTCCCGCAGGATTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
78456081 CTG
1 CTG
78456084 ATAATATAAT
Statistics
Matches: 149, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
38 24 0.16
39 125 0.84
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:78468285 original size:29 final size:28
Alignment explanation
Indices: 78468225--78468308 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 28
78468215 CCTGTACCTA
**
78468225 GCCCATTAAGCCCAATCGTATTCATATC
1 GCCCATTAAGCCCAATCACATTCATATC
* * *
78468253 GCCCATTAGGCCCAAATCACATTTATATG
1 GCCCATTAAGCCC-AATCACATTCATATC
* * *
78468282 GCCCGTT-CGTCCCAGTCACATTCATAT
1 GCCCATTAAG-CCCAATCACATTCATAT
78468309 TCATGCTCAC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
28 25 0.56
29 20 0.44
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (28 bp):
GCCCATTAAGCCCAATCACATTCATATC
Found at i:78468540 original size:16 final size:16
Alignment explanation
Indices: 78468519--78468569 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
78468509 ATAGCCAAAC
78468519 TTTTGGCTTTTCGGCA
1 TTTTGGCTTTTCGGCA
* *
78468535 TTTTGGCATTTT-GACG
1 TTTTGGC-TTTTCGGCA
*
78468551 TTTTGTCTTTTCGGCA
1 TTTTGGCTTTTCGGCA
78468567 TTT
1 TTT
78468570 CGGCATTTCC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 4 0.14
16 20 0.71
17 4 0.14
ACGTcount: A:0.08, C:0.16, G:0.22, T:0.55
Consensus pattern (16 bp):
TTTTGGCTTTTCGGCA
Found at i:78468544 original size:8 final size:8
Alignment explanation
Indices: 78468519--78468577 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
78468509 ATAGCCAAAC
78468519 TTTTGGC-
1 TTTTGGCA
78468526 TTTTCGGCA
1 TTTT-GGCA
78468535 TTTTGGCA
1 TTTTGGCA
* *
78468543 TTTTGACG
1 TTTTGGCA
*
78468551 TTTTGTC-
1 TTTTGGCA
78468558 TTTTCGGCA
1 TTTT-GGCA
*
78468567 TTTCGGCA
1 TTTTGGCA
78468575 TTT
1 TTT
78468578 CCGCTTTTGC
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
7 8 0.19
8 28 0.65
9 7 0.16
ACGTcount: A:0.08, C:0.17, G:0.22, T:0.53
Consensus pattern (8 bp):
TTTTGGCA
Found at i:78471362 original size:25 final size:25
Alignment explanation
Indices: 78471334--78471381 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
78471324 CTTTAATTGT
* *
78471334 CAATTTGGTAATTTTTTTATTTATG
1 CAATTTAGTAATTTTTTCATTTATG
*
78471359 CAATTTAGTCATTTTTTCATTTA
1 CAATTTAGTAATTTTTTCATTTA
78471382 AACCCCAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.58
Consensus pattern (25 bp):
CAATTTAGTAATTTTTTCATTTATG
Found at i:78486220 original size:42 final size:44
Alignment explanation
Indices: 78486097--78486253 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 44
78486087 GTTATCGAGT
* *
78486097 TGTGATTACATGTAAGACCATGTCTGGGACATTAGCATTGTAT-
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTATA
*
78486140 TGTGATTACGTGTAAGACCATGTTTGGGACATTAGCATCGTATA
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTATA
* * * * *
78486184 T-TGATT-CGTGTAAGACCCTGTCTAGGATAATGGCATCG-ATA
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTATA
* ** * *
78486225 TGTGATAACAAGTAAGACAATATCTGGGA
1 TGTGATTACGTGTAAGACCATGTCTGGGA
78486254 TATGGCATTG
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.04
42 30 0.32
43 60 0.63
44 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (44 bp):
TGTGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTATA
Found at i:78486385 original size:43 final size:44
Alignment explanation
Indices: 78486339--78486487 Score: 173
Period size: 43 Copynumber: 3.5 Consensus size: 44
78486329 GTTATCGAGT
*
78486339 TGTGATTACATGTAAGACCATGTCT-GGAACATTGGCATTGTAT-
1 TGTGATTACATGTAAGACCATGTCTAGG-ACATTGGCATCGTATA
** * *
78486382 TGTGATTATGTGTAAGACCATTTCTAGGACATTGGCATCATATA
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATA
* * *
78486426 T-TGATT-CGTGTAAGACCTTGTCTAGGACAGTGGCATCG-ATA
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATA
*
78486467 TGTGATAACATGTAAGACCAT
1 TGTGATTACATGTAAGACCAT
78486488 TTTTGGGATA
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.04
42 31 0.35
43 51 0.57
44 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (44 bp):
TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATA
Found at i:78486462 original size:242 final size:241
Alignment explanation
Indices: 78486026--78486509 Score: 772
Period size: 242 Copynumber: 2.0 Consensus size: 241
78486016 CAAAGTTACA
* *
78486026 ACATCTGAAAGTCCCTTACAAACCTTAGAAATAGCATAGGATACGAATGTCATGACATTAGGTTA
1 ACATATGAAAGTCCCGTACAAACCTTAGAAATAGCATAGGATACGAATGTCATGACATTAGGTTA
*
78486091 TCGAGTTGTGATTACATGTAAGACCATGTCTGGGACATTAGCATTGTATTGTGATTACGTGTAAG
66 TCGAGTTGTGATTACATGTAAGACCATGTCTGGAACATTAGCATTGTATTGTGATTACGTGTAAG
* * *
78486156 ACCATGTTTGGGACATTAGCATCGTATATTGATTCGTGTAAGACCCTGTCTAGGATAATGGCATC
131 ACCATGTTTAGGACATTAGCATCATATATTGATTCGTGTAAGACCCTGTCTAGGACAATGGCATC
78486221 GATATGTGATAACAAGTAAGACAATATCTGGGATATGGCATTGTACG
196 GATATGTGATAACAAGTAAGACAATATCTGGGATAT-GCATTGTACG
* * * *
78486268 ACATATGAAAGTCTCGTACGAACCTTTGGAATAGCATAGGATACGAATGTCATGACATTAGGTTA
1 ACATATGAAAGTCCCGTACAAACCTTAGAAATAGCATAGGATACGAATGTCATGACATTAGGTTA
* *
78486333 TCGAGTTGTGATTACATGTAAGACCATGTCTGGAACATTGGCATTGTATTGTGATTATGTGTAAG
66 TCGAGTTGTGATTACATGTAAGACCATGTCTGGAACATTAGCATTGTATTGTGATTACGTGTAAG
* * *
78486398 ACCAT-TTCTAGGACATTGGCATCATATATTGATTCGTGTAAGACCTTGTCTAGGACAGTGGCAT
131 ACCATGTT-TAGGACATTAGCATCATATATTGATTCGTGTAAGACCCTGTCTAGGACAATGGCAT
* * * *
78486462 CGATATGTGATAACATGTAAGACCATTTTTGGGATATGCATTGTACG
195 CGATATGTGATAACAAGTAAGACAATATCTGGGATATGCATTGTACG
78486509 A
1 A
78486510 GCTTATGTGA
Statistics
Matches: 222, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
241 13 0.06
242 209 0.94
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (241 bp):
ACATATGAAAGTCCCGTACAAACCTTAGAAATAGCATAGGATACGAATGTCATGACATTAGGTTA
TCGAGTTGTGATTACATGTAAGACCATGTCTGGAACATTAGCATTGTATTGTGATTACGTGTAAG
ACCATGTTTAGGACATTAGCATCATATATTGATTCGTGTAAGACCCTGTCTAGGACAATGGCATC
GATATGTGATAACAAGTAAGACAATATCTGGGATATGCATTGTACG
Found at i:78487900 original size:8 final size:8
Alignment explanation
Indices: 78487887--78487913 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
78487877 GAATTTTTAT
78487887 TATAAATG
1 TATAAATG
78487895 TATAAATG
1 TATAAATG
78487903 TATAAATG
1 TATAAATG
78487911 TAT
1 TAT
78487914 GTGAATGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (8 bp):
TATAAATG
Found at i:78495669 original size:6 final size:6
Alignment explanation
Indices: 78495648--78495687 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
78495638 GTTTAAAAAC
* *
78495648 TTTTTA TTTATTA TTTTTA TTTTCA TTTTTA TCTTTA TTT
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
78495688 ATCTTCTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:78495734 original size:11 final size:11
Alignment explanation
Indices: 78495720--78495744 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
78495710 TTCATTTTCC
78495720 TTTAATATTAG
1 TTTAATATTAG
78495731 TTTAATATTAG
1 TTTAATATTAG
78495742 TTT
1 TTT
78495745 TTACAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (11 bp):
TTTAATATTAG
Found at i:78504718 original size:20 final size:19
Alignment explanation
Indices: 78504693--78504736 Score: 79
Period size: 20 Copynumber: 2.3 Consensus size: 19
78504683 AATTGAGGAA
78504693 GTAGAAACACAACCACCGC
1 GTAGAAACACAACCACCGC
78504712 TGTAGAAACACAACCACCGC
1 -GTAGAAACACAACCACCGC
78504732 GTAGA
1 GTAGA
78504737 TCTTTAAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.41, C:0.32, G:0.18, T:0.09
Consensus pattern (19 bp):
GTAGAAACACAACCACCGC
Found at i:78524306 original size:40 final size:40
Alignment explanation
Indices: 78524251--78524482 Score: 254
Period size: 40 Copynumber: 5.8 Consensus size: 40
78524241 ATAACCACAA
* * * *
78524251 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
78524291 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
78524331 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
78524371 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * * *
78524411 GCATAAATGCCTTCGGGACTTAGCCCAGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
78524451 GCATAAATGCCTTCGGGACTTAGCCCAGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
78524483 CATTCAAATG
Statistics
Matches: 181, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 1 0.01
40 176 0.97
41 4 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:78524379 original size:80 final size:79
Alignment explanation
Indices: 78524231--78524482 Score: 310
Period size: 80 Copynumber: 3.2 Consensus size: 79
78524221 TCTTCAGAAT
* * * * * * * *
78524231 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCA
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCA
* *
78524294 CAAATGCCTTCGGGTC
64 TAAATGCCTTCGGGAC
*
78524310 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCAT
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCAT
78524375 AAATGCCTTCGGGAC
65 AAATGCCTTCGGGAC
* * * *
78524390 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCAGATAAAATCACTAGCAT
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCAT
78524455 AAATGCCTTCGGGAC
65 AAATGCCTTCGGGAC
*
78524470 TTAGCCCAGATAT
1 TTAGCCCGGATAT
78524483 CATTCAAATG
Statistics
Matches: 151, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
79 7 0.05
80 137 0.91
81 7 0.05
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (79 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCATA
AATGCCTTCGGGAC
Found at i:78527229 original size:50 final size:49
Alignment explanation
Indices: 78527110--78527338 Score: 183
Period size: 47 Copynumber: 4.8 Consensus size: 49
78527100 TTAATTGTGT
* * *
78527110 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCAGCCAC-ATTAT--GAGG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCACGA-TATGCGAGA
* * *
78527156 GCCAATGTAAGACCATGTTTGGGACATGGCATCGGCACGGATATGCGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GATATGCGAGA
* * * *
78527206 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAT-TTCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCACGATATGCGAGA
* * * *
78527255 G-TCAGTGTAAGAACATTTCTGGGACATGGGATC-G-AC-TTGATG-GATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAT-ATGCGA-GA
*
78527302 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
78527339 TTATACCTAT
Statistics
Matches: 146, Mismatches: 23, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
45 1 0.01
46 13 0.09
47 48 0.33
48 10 0.07
49 35 0.24
50 36 0.25
51 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATGCGAGA
Found at i:78527276 original size:49 final size:47
Alignment explanation
Indices: 78527156--78527335 Score: 175
Period size: 49 Copynumber: 3.7 Consensus size: 47
78527146 CATTATGAGG
* * * *
78527156 GCCAATGTAAGACCATGTTTGGGACATGGCATCGGCACGGATATGCGA-GA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTC-G--AT-CGATGA
* *
78527206 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATTTCGAT-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGA--TCGATGA
* * * * * *
78527255 GTCAGTGTAAGAACATTTCTGGGACATGGGATCGACTTGATGGATGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATCGATGA
78527302 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
78527336 GCATTATACC
Statistics
Matches: 108, Mismatches: 17, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
46 4 0.04
47 31 0.29
48 6 0.06
49 32 0.30
50 32 0.30
51 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATCGATGA
Found at i:78528416 original size:5 final size:5
Alignment explanation
Indices: 78528406--78528431 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
78528396 TAAAGCTTAC
78528406 TCCTT TCCTT TCCTT TCCTT TCCTT T
1 TCCTT TCCTT TCCTT TCCTT TCCTT T
78528432 AGTGTTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (5 bp):
TCCTT
Found at i:78531284 original size:48 final size:47
Alignment explanation
Indices: 78531222--78531349 Score: 152
Period size: 48 Copynumber: 2.7 Consensus size: 47
78531212 GCCACATTAT
* *
78531222 GAGAGCCAGTGTAAGACCATGTTTGGGACATGGTA-CCGTCATTGAGA-
1 GAGAGCCAGTGTAAGA-CATGTTTGGGACATGGAATCCGT-ATTAAGAC
* * *
78531269 GAAGAGCCAGTGTAAGATCATGTCTCGGACATGGAATCGGTATTAAGAC
1 G-AGAGCCAGTGTAAGA-CATGTTTGGGACATGGAATCCGTATTAAGAC
*
78531318 GAGAGCTAGTGTAAGACATGTTTGGGACATGG
1 GAGAGCCAGTGTAAGACATGTTTGGGACATGG
78531350 CATCGGCTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
47 15 0.22
48 50 0.72
49 4 0.06
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACATGTTTGGGACATGGAATCCGTATTAAGAC
Found at i:78531442 original size:49 final size:49
Alignment explanation
Indices: 78531372--78531542 Score: 238
Period size: 49 Copynumber: 3.5 Consensus size: 49
78531362 ATGTGTCAGA
* *
78531372 GTAAGACCTGTC-AGGACATGGCATTGATACCGATAGATGAGAGCCAGT
1 GTAAGACCTATCTGGGACATGGCATTGATACCGATAGATGAGAGCCAGT
78531420 GTAAGACCTATCTGGGACATGGCATTGATACCGATAGATGAGAGCCAGT
1 GTAAGACCTATCTGGGACATGGCATTGATACCGATAGATGAGAGCCAGT
* ** * * *
78531469 GTAAGACCTATCTGGGACATGGCA-TCAGCCTCGATATATGAAAGTCAGT
1 GTAAGACCTATCTGGGACATGGCATTGATAC-CGATAGATGAGAGCCAGT
*
78531518 GTAAGACCTGTCTGGGACATGGCAT
1 GTAAGACCTATCTGGGACATGGCAT
78531543 CGACTTAGAT
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
48 14 0.13
49 97 0.87
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (49 bp):
GTAAGACCTATCTGGGACATGGCATTGATACCGATAGATGAGAGCCAGT
Found at i:78534063 original size:17 final size:18
Alignment explanation
Indices: 78534037--78534074 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
78534027 TCCATTTCAA
* *
78534037 TAATAGTCAGTCA-TTAG
1 TAATAATCAGTAATTTAG
78534054 TAATAATCAGTAATTTAG
1 TAATAATCAGTAATTTAG
78534072 TAA
1 TAA
78534075 CAGTCAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (18 bp):
TAATAATCAGTAATTTAG
Found at i:78534091 original size:18 final size:18
Alignment explanation
Indices: 78534070--78534109 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
78534060 TCAGTAATTT
*
78534070 AGTAACAGTCAAATATTC
1 AGTAACAGTCAAATATTA
* *
78534088 AGTAGCAGTCAATTATTA
1 AGTAACAGTCAAATATTA
78534106 AGTA
1 AGTA
78534110 CCTTTATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (18 bp):
AGTAACAGTCAAATATTA
Found at i:78534257 original size:6 final size:6
Alignment explanation
Indices: 78534217--78534255 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
78534207 GAAATACACC
* *
78534217 GTAACG GTAACA GTAACA GTAACA GTAACA GTAGCA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
78534256 GCGGTACACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:78534849 original size:20 final size:22
Alignment explanation
Indices: 78534799--78534855 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
78534789 TCCCCTGTTC
*
78534799 TTCTCTGTTTCATTTGCTTTGT
1 TTCTCTTTTTCATTTGCTTTGT
78534821 TTCTCTTTTTCATTT-CTTT-T
1 TTCTCTTTTTCATTTGCTTTGT
78534841 GTT-TCTTTTTCATTT
1 -TTCTCTTTTTCATTT
78534856 ATTATTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 13 0.39
21 6 0.18
22 14 0.42
ACGTcount: A:0.05, C:0.18, G:0.07, T:0.70
Consensus pattern (22 bp):
TTCTCTTTTTCATTTGCTTTGT
Found at i:78535008 original size:14 final size:15
Alignment explanation
Indices: 78534984--78535029 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
78534974 ATAAATATCT
78534984 TATAATATAATTATAA
1 TATAAT-TAATTATAA
78535000 TA-AATTAATT-TAA
1 TATAATTAATTATAA
*
78535013 TATAATTTATTACTAA
1 TATAATTAATTA-TAA
78535029 T
1 T
78535030 TCATATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.19
14 12 0.46
15 3 0.12
16 6 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TATAATTAATTATAA
Found at i:78537344 original size:12 final size:12
Alignment explanation
Indices: 78537327--78537353 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
78537317 CATTTTTGAG
78537327 TTAACATGAACA
1 TTAACATGAACA
78537339 TTAACATGAACA
1 TTAACATGAACA
78537351 TTA
1 TTA
78537354 TCACAATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (12 bp):
TTAACATGAACA
Found at i:78539838 original size:111 final size:111
Alignment explanation
Indices: 78539593--78539819 Score: 436
Period size: 111 Copynumber: 2.0 Consensus size: 111
78539583 CATCCTTGCA
*
78539593 AATTTCAAACCACAACCAATACTAATACCAATACTAAACCAAGCCAAACACATTTTATATATTAT
1 AATTTCAAACCACAACCAATACAAATACCAATACTAAACCAAGCCAAACACATTTTATATATTAT
78539658 CCAATACTTGACTTAAAACACTTATCATGTATCATTCTCAATTATC
66 CCAATACTTGACTTAAAACACTTATCATGTATCATTCTCAATTATC
*
78539704 AATTTCAAACCACAACCAATACAAATACCAATACTAAACCAATCCAAACACATTTTATATATTAT
1 AATTTCAAACCACAACCAATACAAATACCAATACTAAACCAAGCCAAACACATTTTATATATTAT
78539769 CCAATACTTGACTTAAAACACTTATCATGTATCATTCTCAATTATC
66 CCAATACTTGACTTAAAACACTTATCATGTATCATTCTCAATTATC
78539815 AATTT
1 AATTT
78539820 ACTTATTTCA
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 114 1.00
ACGTcount: A:0.43, C:0.24, G:0.02, T:0.31
Consensus pattern (111 bp):
AATTTCAAACCACAACCAATACAAATACCAATACTAAACCAAGCCAAACACATTTTATATATTAT
CCAATACTTGACTTAAAACACTTATCATGTATCATTCTCAATTATC
Found at i:78540289 original size:18 final size:18
Alignment explanation
Indices: 78540268--78540308 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
78540258 ATAATCAGTA
78540268 ATTCAATAACAGTCAAAT
1 ATTCAATAACAGTCAAAT
* * *
78540286 ATTCAGTAGCAGTCAATT
1 ATTCAATAACAGTCAAAT
78540304 ATTCA
1 ATTCA
78540309 GTACCTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (18 bp):
ATTCAATAACAGTCAAAT
Found at i:78540309 original size:18 final size:18
Alignment explanation
Indices: 78540277--78540311 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
78540267 AATTCAATAA
78540277 CAGTCAAATATTCAGTAG
1 CAGTCAAATATTCAGTAG
*
78540295 CAGTCAATTATTCAGTA
1 CAGTCAAATATTCAGTA
78540312 CCTTTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (18 bp):
CAGTCAAATATTCAGTAG
Found at i:78540434 original size:6 final size:6
Alignment explanation
Indices: 78540419--78540463 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
78540409 GGAATACATC
* *
78540419 GTAACG GTAACA GTAACA GTAACA GTAACA GTAACA ATAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
78540464 GCAATAGCGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:78540468 original size:12 final size:12
Alignment explanation
Indices: 78540420--78540469 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
78540410 GAATACATCG
* *
78540420 TAACGGTAACAG
1 TAACAGTAACAA
*
78540432 TAACAGTAACAG
1 TAACAGTAACAA
78540444 TAACAGTAACAA
1 TAACAGTAACAA
*
78540456 TAACAGTAGCAA
1 TAACAGTAACAA
78540468 TA
1 TA
78540470 GCGATACATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (12 bp):
TAACAGTAACAA
Found at i:78550282 original size:6 final size:6
Alignment explanation
Indices: 78550268--78550320 Score: 72
Period size: 6 Copynumber: 9.0 Consensus size: 6
78550258 GATGTTTAAA
* * *
78550268 TTTA-T TTTATC TTTATT TTTATT TTTATT TTTATT TTTATT TATGTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
78550315 TTTATT
1 TTTATT
78550321 AATTTCACCT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
5 4 0.10
6 37 0.90
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:78552410 original size:13 final size:13
Alignment explanation
Indices: 78552392--78552417 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78552382 AAGCAATCAT
78552392 ACACGGGCGTGTC
1 ACACGGGCGTGTC
78552405 ACACGGGCGTGTC
1 ACACGGGCGTGTC
78552418 CCTGTCAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:78553638 original size:11 final size:11
Alignment explanation
Indices: 78553622--78553666 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
78553612 TAGTAAATAT
78553622 TATTTTATTAA
1 TATTTTATTAA
*
78553633 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
78553646 TATTTTATTAT
1 TATTTTATTAA
78553657 TATTTTATTA
1 TATTTTATTA
78553667 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:78556682 original size:12 final size:12
Alignment explanation
Indices: 78556662--78556691 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
78556652 TAGCCCTATA
*
78556662 CAGTATCAGTAG
1 CAGTGTCAGTAG
78556674 CAGTGTCAGTAG
1 CAGTGTCAGTAG
78556686 CAGTGT
1 CAGTGT
78556692 GGGCCTTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (12 bp):
CAGTGTCAGTAG
Found at i:78564216 original size:49 final size:49
Alignment explanation
Indices: 78563970--78564331 Score: 241
Period size: 49 Copynumber: 7.6 Consensus size: 49
78563960 GATGTGTGCT
* * * * * *
78563970 AGTGTAAGACATGTCTGGCACAT-GCATCGGCCAC-AT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * * * *
78564016 AGTGTAAGACCATGTTTGGGACATGGCATCAACAT-TA-AGACGAGAGCT
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * * * *
78564064 AGTATAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATGTAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * * *
78564112 AGTGTAAGACCTGTCTAGGACATGGCATC-AGCTTG--ACATG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* *
78564156 AGTGTTAGACCTGTCTGGGACATGGCATCGACAC-CGATAGCTGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * * * *
78564205 AGTGTAAGACCTGTTTGGGACATAGCATTGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* *
78564254 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGAT-GTATG--AGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAG-ATGAAAGCC
* *
78564301 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCG
78564332 GCATCGTACC
Statistics
Matches: 243, Mismatches: 57, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
44 28 0.12
45 2 0.01
46 22 0.09
47 39 0.16
48 71 0.29
49 81 0.33
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:78566272 original size:56 final size:56
Alignment explanation
Indices: 78566186--78566305 Score: 213
Period size: 56 Copynumber: 2.1 Consensus size: 56
78566176 ACAAGGGATG
* *
78566186 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGT
1 ATGGGCAAAACATGTCATAAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
78566242 ATGGGCAAAACATGTCATAAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATAAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
78566298 ATGGGCAA
1 ATGGGCAA
78566306 TAAACTAATA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATAAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:78567812 original size:47 final size:47
Alignment explanation
Indices: 78567758--78568211 Score: 700
Period size: 47 Copynumber: 9.6 Consensus size: 47
78567748 TATTTGAATA
*
78567758 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
78567805 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
78567854 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
78567901 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
78567950 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
78567997 AATGTGAACA-TGCATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
78568044 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
78568091 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
78568138 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
78568185 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
78568212 TCCCGAAGGG
Statistics
Matches: 383, Mismatches: 18, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 289 0.75
49 92 0.24
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:78570627 original size:79 final size:81
Alignment explanation
Indices: 78570491--78570833 Score: 251
Period size: 79 Copynumber: 4.3 Consensus size: 81
78570481 TCGAATGATG
* *
78570491 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
78570555 TTTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
78570570 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
78570632 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* ** *** *
78570650 ACCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTATCCGGGCTAAG-TCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAG-GCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAG-GCA
* * * *
78570712 TTCGTGCTAGTGA-TGTA
64 TTTGTGCGAGTTACTATA
** *** * *
78570729 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAG-GCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAG-GCA
* * *
78570792 TTCGTGCTAGTGA-TATA
64 TTTGTGCGAGTTACTATA
* **
78570809 TCCGTGCTAAACCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
78570834 CATGCTGGTG
Statistics
Matches: 231, Mismatches: 24, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
78 1 0.00
79 118 0.51
80 100 0.43
81 12 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:78570706 original size:119 final size:119
Alignment explanation
Indices: 78570571--78570878 Score: 352
Period size: 119 Copynumber: 2.6 Consensus size: 119
78570561 AGTTACTAAT
* * *
78570571 TCCGGGCTAAGCCCGAAG-GCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAG-GCATT
1 TCCGGGCTAAGCCCGAAGAGCATTCGTGCGAGTGA-TAAATCCGGGCTAAGTCCCGAAGAGCATT
** * *
78570634 TGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
65 CATGCGAGTGA-TATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * **
78570690 TCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTC
1 TCCGGGCTAAGCCCGAAGAGCATTCGTGCGAGTGATAAATCCGGGCTAAGTCCCGAAGAGCATTC
* * * * *
78570755 ATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
66 ATGCGAGTGATATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * * * * *
78570809 TCCGTGCTAAACCCCGAAGAGCATTCATGCTG-GTGTTATATCCGGGCTAGGTCCCGAAGAGCAA
1 TCCGGGCT-AAGCCCGAAGAGCATTCGTGC-GAGTGATAAATCCGGGCTAAGTCCCGAAGAGCAT
78570873 TCATGC
64 TCATGC
78570879 CGGTGACGTG
Statistics
Matches: 160, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
119 83 0.52
120 77 0.48
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGCTAAGCCCGAAGAGCATTCGTGCGAGTGATAAATCCGGGCTAAGTCCCGAAGAGCATTC
ATGCGAGTGATATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:78570800 original size:40 final size:40
Alignment explanation
Indices: 78570491--78570878 Score: 362
Period size: 40 Copynumber: 9.8 Consensus size: 40
78570481 TCGAATGATG
** *
78570491 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * *
78570531 TCCGGACTAAGAT-CCGAAG-GCATTTTTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
** * * *
78570570 TTCCGGGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TATA
* ** * *
78570610 TCCGGGTTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TATA
* *
78570650 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
78570690 TCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
78570729 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
78570769 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * *
78570809 TCCGTGCTAAACCCCGAAGAGCATTCATGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
78570849 TCCGGGCTAGGTCCCGAAGAGCAATCATGC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGC
78570879 CGGTGACGTG
Statistics
Matches: 304, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
39 72 0.24
40 213 0.70
41 19 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:78572236 original size:56 final size:56
Alignment explanation
Indices: 78572150--78572269 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
78572140 ACAAGGGATG
78572150 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
78572206 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
78572262 ATGGGCAA
1 ATGGGCAA
78572270 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:78642442 original size:27 final size:27
Alignment explanation
Indices: 78642359--78642511 Score: 152
Period size: 27 Copynumber: 5.7 Consensus size: 27
78642349 GTGTATATAA
*
78642359 TCAAC-CGCAC-CTTAGTGCCACATAA
1 TCAACTCGCACACTTAGTGCCACATAG
*
78642384 TCAAACTCGCACACTTTAGTGCTACATAG
1 TC-AACTCGCACAC-TTAGTGCCACATAG
* *
78642413 TCAACTCGCACACTTAGTGCCGCATGG
1 TCAACTCGCACACTTAGTGCCACATAG
* *
78642440 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAACTCGCACACTTAGTGCCA-CATAG
** *
78642467 TCATTTCGCACACTTAGTGCAACATAG
1 TCAACTCGCACACTTAGTGCCACATAG
* *
78642494 TCAAATCACACAC-TAGTG
1 TCAACTCGCACACTTAGTG
78642512 TGTACAATTT
Statistics
Matches: 107, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
25 2 0.02
26 9 0.08
27 69 0.64
28 13 0.12
29 14 0.13
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
TCAACTCGCACACTTAGTGCCACATAG
Found at i:78650173 original size:27 final size:27
Alignment explanation
Indices: 78650143--78650319 Score: 203
Period size: 27 Copynumber: 6.6 Consensus size: 27
78650133 ATATTGAGTC
* * * *
78650143 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
78650170 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
78650197 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
** * *
78650224 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
78650251 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
78650278 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
78650305 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78650320 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
27 128 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:78650281 original size:81 final size:81
Alignment explanation
Indices: 78650164--78650318 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
78650154 TGCTATATAA
* * *
78650164 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAACTCGCAC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
78650229 ACTTAGTGCCGCATGG
66 ACTTAGTGCCGCATGG
* * **
78650245 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
78650309 CACTTAGTGC
65 CACTTAGTGC
78650319 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:78654650 original size:46 final size:46
Alignment explanation
Indices: 78654583--78654754 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
78654573 AACCCGCCCC
*
78654583 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
* *
78654629 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCATCCA
* * *
78654677 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
*
78654722 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
78654755 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 59 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
Found at i:78654695 original size:93 final size:93
Alignment explanation
Indices: 78654588--78654758 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
78654578 GCCCCTAAGT
*
78654588 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
78654653 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
78654681 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
78654746 CGAGTTCGGATGC
66 CGAGTTCGGATGC
78654759 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:78655212 original size:30 final size:30
Alignment explanation
Indices: 78655178--78655237 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
78655168 ATTTAATACG
*
78655178 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
* * *
78655208 AACTTTTGCATAATTACACTTTTACCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
78655238 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTACCCCTA
Found at i:78656858 original size:5 final size:5
Alignment explanation
Indices: 78656848--78656876 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
78656838 GGTAATTTGA
78656848 TAAAT TAAAT TAAAT TAAAT TAAAT TAAA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAA
78656877 CAAAAGCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
TAAAT
Found at i:78657170 original size:18 final size:18
Alignment explanation
Indices: 78657133--78657170 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
78657123 TAAATGATGA
78657133 ATTTAAAGTATTAGTTGTT
1 ATTTAAAGTATTA-TTGTT
78657152 ATTTATAAGTATT-TTGTT
1 ATTTA-AAGTATTATTGTT
78657170 A
1 A
78657171 AGTGATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (18 bp):
ATTTAAAGTATTATTGTT
Found at i:78662216 original size:30 final size:30
Alignment explanation
Indices: 78662182--78662242 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
78662172 TCCTTAACTC
*
78662182 AAACTTTTGCAAATTTATAATTTTGCCCCT
1 AAACTTTTGCAAATTTACAATTTTGCCCCT
* *
78662212 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAATTTACAATTTTGCCCCT
78662242 A
1 A
78662243 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.43
Consensus pattern (30 bp):
AAACTTTTGCAAATTTACAATTTTGCCCCT
Found at i:78663980 original size:37 final size:37
Alignment explanation
Indices: 78663930--78664000 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
78663920 GCTCAGACGA
78663930 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
78663967 AATCTCCACACGTAGTCATCGGGTCTTACTCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
78664001 ATATATTTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:78664487 original size:48 final size:48
Alignment explanation
Indices: 78664147--78664480 Score: 614
Period size: 48 Copynumber: 7.0 Consensus size: 48
78664137 GCACCTCGCC
* *
78664147 TACATATTTCACACTAGCCATTCGGCTTTACAACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
78664195 TACATATTTCATATTAGCCATTCGGCTTTACCACATATACATGTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
78664243 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATGTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
78664291 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATGTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
78664339 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
78664387 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
78664435 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
78664481 TGTACATCAA
Statistics
Matches: 280, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 280 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:78668159 original size:27 final size:26
Alignment explanation
Indices: 78668124--78668235 Score: 109
Period size: 27 Copynumber: 4.2 Consensus size: 26
78668114 AGCATGGTTG
*
78668124 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
*
78668150 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
*
78668178 CCAGAACAGATATATGTGGCAGCA-CCA
1 CCAGAACAGATA-ATGTGACAG-AGCCA
** * *
78668205 CCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGACAGAGCCA
78668232 CCAG
1 CCAG
78668236 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 11
0.82 0.05 0.12
Matches are distributed among these distances:
26 7 0.09
27 50 0.67
28 18 0.24
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:78668188 original size:54 final size:54
Alignment explanation
Indices: 78668124--78668235 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
78668114 AGCATGGTTG
*
78668124 CCAGAACAGATA-ATGTGACAG-AGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGCA-CCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
78668178 CCAGAACAGATATATGTGGCAGCACCACCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGCACCACCAGATCAGATAATCGTGGCAGAGCCA
78668232 CCAG
1 CCAG
78668236 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
54 34 0.67
55 16 0.31
56 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGCACCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:78673429 original size:30 final size:30
Alignment explanation
Indices: 78673393--78673450 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
78673383 TCCTTAACTC
*
78673393 AAACTTTTGCAAATTTATAATTTTGCCCCT
1 AAACTTTTGCAAATTTACAATTTTGCCCCT
* *
78673423 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTTGCAAATTTACAATTTTGCCC
78673451 TTAGGCTCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (30 bp):
AAACTTTTGCAAATTTACAATTTTGCCCCT
Found at i:78677319 original size:27 final size:27
Alignment explanation
Indices: 78677289--78677354 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
78677279 GGTAAAATAA
* * * *
78677289 TCATTTTACCCTATAGGGGTATGTCGG
1 TCATTTTACACTACAAGGGTATGTCAG
*
78677316 TCATTTTACACTACAAGGGTATTTCAG
1 TCATTTTACACTACAAGGGTATGTCAG
*
78677343 TAATTTTACACT
1 TCATTTTACACT
78677355 TCGATAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (27 bp):
TCATTTTACACTACAAGGGTATGTCAG
Found at i:78677389 original size:27 final size:27
Alignment explanation
Indices: 78677359--78677605 Score: 293
Period size: 27 Copynumber: 9.2 Consensus size: 27
78677349 TACACTTCGA
* **
78677359 TAATTTTACAAATTGAGGGTGTTTTGG
1 TAATTTTACAAATTGAGGGTATTTCAG
* *
78677386 TAATTTTACAAATCGAGGGTGTTTC-G
1 TAATTTTACAAATTGAGGGTATTTCAG
* *
78677412 ATAATTTTACAAATCGGGGGTATTTCAG
1 -TAATTTTACAAATTGAGGGTATTTCAG
*
78677440 TAATTTTACAAATTGAGCGTATTTCAG
1 TAATTTTACAAATTGAGGGTATTTCAG
* * *
78677467 TAATTTTACAAATCGAGCGTATTTTAG
1 TAATTTTACAAATTGAGGGTATTTCAG
**
78677494 TAATTTTACAAATTGAGGGTATTTTGG
1 TAATTTTACAAATTGAGGGTATTTCAG
* *
78677521 TAATTTTACAAATTAAGGGTATTTCGG
1 TAATTTTACAAATTGAGGGTATTTCAG
*
78677548 TAATTTCAC-AATTGAGGGTATTTCAG
1 TAATTTTACAAATTGAGGGTATTTCAG
* * *
78677574 TAATTTTACAAATCGA-GGTATTTTAA
1 TAATTTTACAAATTGAGGGTATTTCAG
78677600 TAATTT
1 TAATTT
78677606 CTCTTTATTA
Statistics
Matches: 196, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
26 38 0.19
27 157 0.80
28 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
TAATTTTACAAATTGAGGGTATTTCAG
Found at i:78683102 original size:20 final size:21
Alignment explanation
Indices: 78683077--78683126 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
78683067 AAGCTTATGC
78683077 TAAGTAAATGA-AATGGA-AAG
1 TAAGTAAATGAGAAT-GATAAG
78683097 TAAGTAAAT-AGAATGATAAG
1 TAAGTAAATGAGAATGATAAG
78683117 TAAGTAAATG
1 TAAGTAAATG
78683127 GAGTGGTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (21 bp):
TAAGTAAATGAGAATGATAAG
Found at i:78696663 original size:3 final size:3
Alignment explanation
Indices: 78696648--78696694 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
78696638 AGGGAATGAT
* * * *
78696648 ATA ATA GTA ATA ATA ATA ATA GTA GTA ATA AAA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
78696695 TTTAAAATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:78698216 original size:97 final size:96
Alignment explanation
Indices: 78698043--78698339 Score: 296
Period size: 97 Copynumber: 3.1 Consensus size: 96
78698033 CTACTTTAGA
* ** * ** * * *
78698043 GAGATAAGACCCGTAACTTGTAGCTTCAATCTTCTATACTGCGACTTTAGGGAAATAAGATTCGC
1 GAGATAACACCCAAAACTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATT-AC
* *
78698108 TATCTTT-AGTCTACTCCTACTACAACTTC-AG
65 TAT-TTTCAGTCTGCTCCTACTGCAACTTCAAG
** * * *
78698139 GAAGATAACA-TTAGAAATTTTTAGCTTCAATCTACTCCACTACAACTTCAGGGAAATAAGATCT
1 G-AGATAACACCCA-AAACTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGAT-T
78698203 ACTATTTTCAGTCTGCTCCTACTGCAACTTCAAG
63 ACTATTTTCAGTCTGCTCCTACTGCAACTTCAAG
* * * * * *
78698237 GAGATAAGACCCATAGCTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATGAGATTTTC
1 GAGATAACACCCAAAACTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGA-TTAC
* *
78698302 TATCTTCAGTCTGCTCC-GCTGCAACTTCAAG
65 TATTTTCAGTCTGCTCCTACTGCAACTTCAAG
78698333 GAGATAA
1 GAGATAA
78698340 GGCTGGTAAC
Statistics
Matches: 165, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
96 24 0.15
97 135 0.82
98 6 0.04
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (96 bp):
GAGATAACACCCAAAACTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTACT
ATTTTCAGTCTGCTCCTACTGCAACTTCAAG
Done.