Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 234 of 276
Found at i:77540014 original size:14 final size:14
Alignment explanation
Indices: 77539800--77540014 Score: 91
Period size: 14 Copynumber: 15.0 Consensus size: 14
77539790 AGTAAGTAGT
*
77539800 CTATATGTGAACCCC
1 CTATATGCGAA-CCC
* *
77539815 CTATAGGCGAACCA
1 CTATATGCGAACCC
*
77539829 CTATATGTGAACCC
1 CTATATGCGAACCC
* **
77539843 CTATAAGAAAACCTC
1 CTATATGCGAACC-C
*
77539858 CTGTATAG-GAACCC
1 CTATAT-GCGAACCC
*
77539872 TTATA-G-GTAAGCCAC
1 CTATATGCG-AA-CC-C
* *
77539887 CTGTATACGAACCC
1 CTATATGCGAACCC
* *
77539901 CTATAGGCTAACCC
1 CTATATGCGAACCC
* *
77539915 CTTGTATGTGAACCC
1 C-TATATGCGAACCC
*
77539930 CTATAGGCGAACCC
1 CTATATGCGAACCC
* *
77539944 CTTGTATGCAAACCC
1 C-TATATGCGAACCC
* *
77539959 CTATAGGC-AAACC
1 CTATATGCGAACCC
* *
77539972 CTGTATGCAAACCC
1 CTATATGCGAACCC
77539986 ACTATA-G-GTAGACCC
1 -CTATATGCG-A-ACCC
77540001 CTATATGCGAACCC
1 CTATATGCGAACCC
77540015 ATTTATAAAA
Statistics
Matches: 146, Mismatches: 39, Indels: 31
0.68 0.18 0.14
Matches are distributed among these distances:
12 2 0.01
13 12 0.08
14 72 0.49
15 55 0.38
16 4 0.03
17 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (14 bp):
CTATATGCGAACCC
Found at i:77540015 original size:29 final size:27
Alignment explanation
Indices: 77539803--77540014 Score: 156
Period size: 29 Copynumber: 7.4 Consensus size: 27
77539793 AAGTAGTCTA
* * * *
77539803 TATGTGAACCCCCTATAGGCGAACCACTA
1 TATGCGAA-CCCCTATAGG-TAACCCCTG
* **
77539832 TATGTGAACCCCTATAAGAAAACCTCCTG
1 TATGCGAACCCCTAT-AGGTAACC-CCTG
*
77539861 TATAG-GAACCCTTATAGGTAAGCCACCTG
1 TAT-GCGAACCCCTATAGGTAA-CC-CCTG
*
77539890 TATACGAACCCCTATAGGCTAACCCCTTG
1 TATGCGAACCCCTATAGG-TAACCCC-TG
* *
77539919 TATGTGAACCCCTATAGGCGAACCCCTTG
1 TATGCGAACCCCTATAGG-TAACCCC-TG
* * *
77539948 TATGCAAACCCCTATAGGCAAACCCTG
1 TATGCGAACCCCTATAGGTAACCCCTG
* *
77539975 TATGCAAACCCACTATAGGTAGACCCCTA
1 TATGCGAACCC-CTATAGGTA-ACCCCTG
77540004 TATGCGAACCC
1 TATGCGAACCC
77540015 ATTTATAAAA
Statistics
Matches: 153, Mismatches: 21, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
27 13 0.08
28 30 0.20
29 106 0.69
30 4 0.03
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.22
Consensus pattern (27 bp):
TATGCGAACCCCTATAGGTAACCCCTG
Found at i:77542474 original size:26 final size:26
Alignment explanation
Indices: 77542428--77542480 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
77542418 TCAAACATGC
*
77542428 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
77542454 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
77542480 A
1 A
77542481 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:77544001 original size:26 final size:26
Alignment explanation
Indices: 77543965--77544048 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
77543955 CATGAAATTC
77543965 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
77543991 TTATCTTGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
77544017 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
77544043 TTATCA
1 TTATCA
77544049 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:77552377 original size:19 final size:19
Alignment explanation
Indices: 77552353--77552389 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
77552343 AAGAACAAAG
*
77552353 GAAATCGGACTTGGATCGC
1 GAAATCAGACTTGGATCGC
77552372 GAAATCAGACTTGGATCG
1 GAAATCAGACTTGGATCG
77552390 GAGAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.22
Consensus pattern (19 bp):
GAAATCAGACTTGGATCGC
Found at i:77552747 original size:16 final size:16
Alignment explanation
Indices: 77552728--77552758 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
77552718 CGGGCTTTGT
77552728 GCCTAGCAGGCTTAGC
1 GCCTAGCAGGCTTAGC
77552744 GCCTAGCAGGCTTAG
1 GCCTAGCAGGCTTAG
77552759 TGCCGGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.29, G:0.32, T:0.19
Consensus pattern (16 bp):
GCCTAGCAGGCTTAGC
Found at i:77555154 original size:6 final size:6
Alignment explanation
Indices: 77555143--77555287 Score: 129
Period size: 6 Copynumber: 23.8 Consensus size: 6
77555133 AACCAAAATG
*
77555143 AGAATC AGAATC AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC
* * * *
77555191 AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGTATT AGTAA-C
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC
* *
77555240 AGAATC AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
77555288 GTGAATGCAA
Statistics
Matches: 113, Mismatches: 14, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
5 7 0.06
6 97 0.86
7 6 0.05
8 3 0.03
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:77555224 original size:25 final size:24
Alignment explanation
Indices: 77555190--77555287 Score: 115
Period size: 25 Copynumber: 3.8 Consensus size: 24
77555180 GTAACAGAAT
77555190 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATTA-GTGA
*
77555215 CAGAATCAGAATCAGTATTAGTAACAGAA
1 CAGAATCAGAATCAGAATTAGT----G-A
77555244 TCAGAATCAGAATCAGAATTACGTGA
1 -CAGAATCAGAATCAGAATTA-GTGA
77555270 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
77555288 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
24 2 0.03
25 37 0.58
26 1 0.02
27 1 0.02
28 1 0.02
29 1 0.02
30 19 0.30
31 2 0.03
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.20
Consensus pattern (24 bp):
CAGAATCAGAATCAGAATTAGTGA
Found at i:77555234 original size:55 final size:55
Alignment explanation
Indices: 77555160--77555284 Score: 232
Period size: 55 Copynumber: 2.3 Consensus size: 55
77555150 GAATCAGAAT
* *
77555160 CAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTACGTGA
77555215 CAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTACGTGA
1 CAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTACGTGA
77555270 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
77555285 AATGTGAATG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 68 1.00
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.21
Consensus pattern (55 bp):
CAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTACGTGA
Found at i:77555442 original size:27 final size:26
Alignment explanation
Indices: 77555405--77555470 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
77555395 AGCATGGCTG
*
77555405 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
77555431 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
77555458 CCAGAATCAGATA
1 CCAGAA-CAGATA
77555471 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:77555475 original size:27 final size:27
Alignment explanation
Indices: 77555405--77555478 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
77555395 AGCATGGCTG
* *
77555405 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
77555431 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
77555458 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
77555479 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:77555485 original size:27 final size:27
Alignment explanation
Indices: 77555429--77555486 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
77555419 GTGACAGAGT
* * *
77555429 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
77555456 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
77555483 CACC
1 CACC
77555487 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:77555691 original size:22 final size:22
Alignment explanation
Indices: 77555643--77555701 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
77555633 GTAAATATGT
77555643 TTGGCACAAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
77555665 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
77555687 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
77555702 TAATAACGGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:77555868 original size:27 final size:26
Alignment explanation
Indices: 77555792--77555871 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 26
77555782 ATCGGTCAAT
* * *
77555792 AGATATTGTGACAGAGTCACCAAATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
77555819 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
77555845 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAC
77555872 GCTTCCTCCG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.15
27 41 0.85
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:77556100 original size:27 final size:27
Alignment explanation
Indices: 77556070--77556257 Score: 207
Period size: 27 Copynumber: 7.0 Consensus size: 27
77556060 GGGGCAAAAT
* *
77556070 GGTAATTTTAGCCC-ACAAGGGTATCTC
1 GGTAATTCTA-CCCTACAAGGGTATTTC
*
77556097 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
77556124 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
77556151 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
77556178 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
77556205 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*** * *
77556232 AAAAATTCTACCCTATAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
77556258 TAGTAATTTC
Statistics
Matches: 141, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 3 0.02
27 138 0.98
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:77556214 original size:81 final size:81
Alignment explanation
Indices: 77556088--77556265 Score: 239
Period size: 81 Copynumber: 2.2 Consensus size: 81
77556078 TAGCCCACAA
* * * * * *
77556088 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGA
1 GGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAA
*
77556153 TAATTCTACCCTACAG
66 AAATTCTACCCTACAG
* * * *
77556169 GGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAA
1 GGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAA
*
77556234 AAATTCTACCCTATAG
66 AAATTCTACCCTACAG
*
77556250 GGGTATTTTAGTAATT
1 GGGTATTTTGGTAATT
77556266 TCACAATCAA
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 84 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (81 bp):
GGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAA
AAATTCTACCCTACAG
Found at i:77556239 original size:54 final size:54
Alignment explanation
Indices: 77556086--77556265 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 54
77556076 TTTAGCCCAC
* * * *
77556086 AAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTAC
1 AAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTAT
* *
77556140 AAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTAT
1 AAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTAT
* ***
77556194 AAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAAAAATTCTACCCTAT
1 AAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTAT
* *
77556248 AGGGGTATTTTAGTAATT
1 AAGGGTATTTCAGTAATT
77556266 TCACAATCAA
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 109 0.98
55 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.37
Consensus pattern (54 bp):
AAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTAT
Found at i:77556300 original size:27 final size:27
Alignment explanation
Indices: 77556270--77556599 Score: 307
Period size: 27 Copynumber: 12.2 Consensus size: 27
77556260 GTAATTTCAC
* *
77556270 AATCAAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
*
77556297 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
* *
77556324 AA-CTGAGGGT-AAACCAGTAATTCTATA
1 AATC-GAGGGTAAAACGA-TAATTCTGTA
** * * **
77556351 AATTAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGATAATTCTGTA
* *
77556378 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
*
77556405 AATCGAGGGTAAAA-TAGTAATTCTGTA
1 AATCGAGGGTAAAACGA-TAATTCTGTA
* *
77556432 AA-CTGAGGGTAAAATGATAATTCTTTA
1 AATC-GAGGGTAAAACGATAATTCTGTA
*
77556459 AATCGAGGGTAAAA-TAGTAATTCTGTA
1 AATCGAGGGTAAAACGA-TAATTCTGTA
*
77556486 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGATAATTCTGTA
* *
77556513 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGATAATTCTGTA
* *
77556540 AATCGAGGGTAAAACGGTAATT-TTTAAA
1 AATCGAGGGTAAAACGATAATTCTGT--A
* *
77556568 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTGTA
77556595 AATCG
1 AATCG
77556600 GGAGTACTTT
Statistics
Matches: 260, Mismatches: 28, Indels: 30
0.82 0.09 0.09
Matches are distributed among these distances:
26 11 0.04
27 217 0.83
28 30 0.12
29 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTCTGTA
Found at i:77556372 original size:81 final size:82
Alignment explanation
Indices: 77556274--77556596 Score: 370
Period size: 81 Copynumber: 4.0 Consensus size: 82
77556264 TTTCACAATC
* *
77556274 AAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGATAATTTTGTAAACT-GAGGGTAAAC
1 AAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAACTCGAGGGTAAAA
*
77556338 CAGTAATTCTATAAATT
66 CAGTAATTCTATAAACT
* ** * *
77556355 AAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAATGGTAATTCTGTAAA-TCGAGGGTAAAA
1 AAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAACTCGAGGGTAAAA
* *
77556419 TAGTAATTCTGTAAACT
66 CAGTAATTCTATAAACT
* * *
77556436 GAGGGTAAAATGATAATTCTT-TAAATCGAGGGTAAAA-TAGTAATTCTGTAAACT-GAGGGTAA
1 AAGGGTAAAACGATAATT-TTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAACTCGAGGGTAA
* *
77556498 AACGGTAATTCTGTAAACT
64 AACAGTAATTCTATAAACT
* * * * * * *
77556517 GAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATT-TTTAAAAATCGAGGGTAAA
1 AAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGATAATTCTGT-AAACTCGAGGGTAAA
*
77556581 ACGGTAATTCTATAAA
65 ACAGTAATTCTATAAA
77556597 TCGGGAGTAC
Statistics
Matches: 209, Mismatches: 25, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
80 4 0.02
81 178 0.85
82 27 0.13
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (82 bp):
AAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAACTCGAGGGTAAAA
CAGTAATTCTATAAACT
Found at i:77569592 original size:126 final size:127
Alignment explanation
Indices: 77569414--77569666 Score: 411
Period size: 126 Copynumber: 2.0 Consensus size: 127
77569404 CGTCTTAGGT
*
77569414 TTCATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAAATAAAAAGGAAAACATCTCAGAAGAAT
1 TTCATCCCCCTTAGGTATTTAGGGGATTTAGTTCATAAATAAAAAGGAAAACATCTCAGAAGAAT
* * * *
77569479 AATGAATACAAAACATAAAGAAAACTCAAAACTCCTGCAGGGAAATTGAGGGGACATCTTCA
66 AAAGAATACAAAACATAAAGAAAACCCAAAACTCCTGAAGGGAAATTGAGGAGACATCTTCA
*
77569541 TTCATCCCCCTTAGGTATTTAGGGG-TTTAGTTCATAACTAAATAA-GAAAACATCTCAGAAGAA
1 TTCATCCCCCTTAGGTATTTAGGGGATTTAGTTCATAAATAAA-AAGGAAAACATCTCAGAAGAA
* *
77569604 TAAAGAATACAAAACATAAAGAAAACCCAAAACTCTTGAAGGGAAATTGAGGAGAGATCTTCA
65 TAAAGAATACAAAACATAAAGAAAACCCAAAACTCCTGAAGGGAAATTGAGGAGACATCTTCA
77569667 GTCTTGATGA
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
126 91 0.78
127 26 0.22
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (127 bp):
TTCATCCCCCTTAGGTATTTAGGGGATTTAGTTCATAAATAAAAAGGAAAACATCTCAGAAGAAT
AAAGAATACAAAACATAAAGAAAACCCAAAACTCCTGAAGGGAAATTGAGGAGACATCTTCA
Found at i:77578238 original size:5 final size:5
Alignment explanation
Indices: 77578228--77578259 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
77578218 CAATTTGTGA
77578228 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
77578260 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:77578253 original size:9 final size:9
Alignment explanation
Indices: 77578229--77578259 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
77578219 AATTTGTGAA
77578229 AAATAAAAT
1 AAATAAAAT
77578238 AAAATAAAAT
1 -AAATAAAAT
77578248 AAATAAAAT
1 AAATAAAAT
77578257 AAA
1 AAA
77578260 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:77579322 original size:388 final size:389
Alignment explanation
Indices: 77578605--77579391 Score: 1504
Period size: 388 Copynumber: 2.0 Consensus size: 389
77578595 TATTTTTTAA
77578605 TTTTTGATAATTTGTTTATAATGCATGGACTTCCATGCCTATTGACTTGGTTACTGTACAATAGC
1 TTTTTGATAATTTGTTTATAATGCATGGACTTCCATGCCTATTGACTTGGTTACTGTACAATAGC
77578670 ATGACTTACATACTCATCACTCTGTTTTTATATATGCATGCCATGACACATTGCATGGGACTTGG
66 ATGACTTACATACTCATCACTCTGTTTTTATATATGCATGCCATGACACATTGCATGGGACTTGG
77578735 TATGTTGTGAAAGAAGAAAGTTTTTGAAAGCTTAATGGTTTGCATTATCTAGTGGTTTATCCACG
131 TATGTTGTGAAAGAAGAAAGTTTTTGAAAGCTTAATGGTTTGCATTATCTAGTGGTTTATCCACG
77578800 ATTCTATTATGGTAGCTTGGCTGCAGTATAACGGCTTGATCACATTTATCTGATCTGGCAGTTTT
196 ATTCTATTATGGTAGCTTGGCTGCAGTATAACGGCTTGATCACATTTATCTGATCTGGCAGTTTT
77578865 AACTACAAATATTCTGGTGGCATTGTCCACAATTATTTTTTGCTGTCCACAATTATCTGTTGGTG
261 AACTACAAATATTCTGGTGGCATTGTCCACAATTATTTTTTGCTGTCCACAATTATCTGTTGGTG
* *
77578930 TGATTTGGCTGGATAAGTTCTAGGGAAACTCTATTTTGGTATGTAGCAGAGTTAGGTAAAATAT
326 TGATTAGGCTGGATAAGTTCTAGGAAAACTCTATTTTGGTATGTAGCAGAGTTAGGTAAAATAT
*
77578994 TTTTTGATAATTTGTTTATAATGCATGGACTTCCATGCCTATTGACTTGGTTACTGTA-GATAGC
1 TTTTTGATAATTTGTTTATAATGCATGGACTTCCATGCCTATTGACTTGGTTACTGTACAATAGC
* *
77579058 ATGACTTATATGCTCATCACTCTGTTTTTATATATGCATGCCATGACACATTGCATGGGACTTGG
66 ATGACTTACATACTCATCACTCTGTTTTTATATATGCATGCCATGACACATTGCATGGGACTTGG
77579123 TATGTTGTGAAAGAAGAAAGTTTTTGAAAGCTTAATGGTTTGCATTATCTAGTGGTTTATCCACG
131 TATGTTGTGAAAGAAGAAAGTTTTTGAAAGCTTAATGGTTTGCATTATCTAGTGGTTTATCCACG
77579188 ATTCTATTATGGTAGCTTGGCTGCAGTATAACGGCTTGATCACATTTATCTGATCTGGCAGTTTT
196 ATTCTATTATGGTAGCTTGGCTGCAGTATAACGGCTTGATCACATTTATCTGATCTGGCAGTTTT
77579253 AACTACAAATATTCTGGTGGCATTGTCCACAATTATTTTTTGCTGTCCACAATTATCTGTTGGTG
261 AACTACAAATATTCTGGTGGCATTGTCCACAATTATTTTTTGCTGTCCACAATTATCTGTTGGTG
* *
77579318 TGATTAGGCTGGATAAGTTCTAGGAAAACTCTATTTTGGTATGTAGCAGAGTTAGGTAGAATGT
326 TGATTAGGCTGGATAAGTTCTAGGAAAACTCTATTTTGGTATGTAGCAGAGTTAGGTAAAATAT
77579382 TTTTTGATAA
1 TTTTTGATAA
77579392 ATCTACATTC
Statistics
Matches: 391, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
388 333 0.85
389 58 0.15
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (389 bp):
TTTTTGATAATTTGTTTATAATGCATGGACTTCCATGCCTATTGACTTGGTTACTGTACAATAGC
ATGACTTACATACTCATCACTCTGTTTTTATATATGCATGCCATGACACATTGCATGGGACTTGG
TATGTTGTGAAAGAAGAAAGTTTTTGAAAGCTTAATGGTTTGCATTATCTAGTGGTTTATCCACG
ATTCTATTATGGTAGCTTGGCTGCAGTATAACGGCTTGATCACATTTATCTGATCTGGCAGTTTT
AACTACAAATATTCTGGTGGCATTGTCCACAATTATTTTTTGCTGTCCACAATTATCTGTTGGTG
TGATTAGGCTGGATAAGTTCTAGGAAAACTCTATTTTGGTATGTAGCAGAGTTAGGTAAAATAT
Found at i:77579500 original size:30 final size:30
Alignment explanation
Indices: 77579466--77579524 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
77579456 TGTTTAGTGC
*
77579466 TACTCTACTCTACTCTGTTATGTTCTGCTT
1 TACTCTACTCTACTCTGTTACGTTCTGCTT
** * *
77579496 TACTCTTTTCTATTCTGTTACGTTTTGCT
1 TACTCTACTCTACTCTGTTACGTTCTGCT
77579525 CTATCCTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.10, T:0.54
Consensus pattern (30 bp):
TACTCTACTCTACTCTGTTACGTTCTGCTT
Found at i:77580887 original size:46 final size:46
Alignment explanation
Indices: 77580795--77580888 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 46
77580785 TTATAAATTA
* * * *
77580795 TTTAGGGTTTACAAGATAATGAATTTAGGGGTTATGGATATTCATT
1 TTTAGGGGTTACAAGATAATGAATTTAGGGGTTATGAACATCCATT
* *
77580841 TTTAGGGGTTACAATATGATGAAATTT-GGGGTTATGAACATCCATT
1 TTTAGGGGTTACAAGATAATG-AATTTAGGGGTTATGAACATCCATT
77580887 TT
1 TT
77580889 ATCAAATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 36 0.88
47 5 0.12
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.40
Consensus pattern (46 bp):
TTTAGGGGTTACAAGATAATGAATTTAGGGGTTATGAACATCCATT
Found at i:77584166 original size:34 final size:34
Alignment explanation
Indices: 77584123--77584190 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
77584113 CTAAAGGTGT
*
77584123 TGGATATCATTTTAAGGTAGCATGTTAAGCAGGA
1 TGGATATCATTTTAAGGCAGCATGTTAAGCAGGA
77584157 TGGATATCATTTTAAGGCAGCATGTTAAGCAGGA
1 TGGATATCATTTTAAGGCAGCATGTTAAGCAGGA
77584191 ATGCCTACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.31
Consensus pattern (34 bp):
TGGATATCATTTTAAGGCAGCATGTTAAGCAGGA
Found at i:77587123 original size:11 final size:11
Alignment explanation
Indices: 77587104--77587151 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 11
77587094 CTTCTATTTC
77587104 AAAAAAAAAAG
1 AAAAAAAAAAG
77587115 AAAAGAAAAAGAG
1 AAAA-AAAAA-AG
77587128 AAAAAATAAAGAG
1 AAAAAA-AAA-AG
77587141 AAAAAAGAAAA
1 AAAAAA-AAAA
77587152 AATGGAGAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
11 4 0.12
12 8 0.24
13 21 0.64
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:77587129 original size:13 final size:12
Alignment explanation
Indices: 77587104--77587146 Score: 61
Period size: 13 Copynumber: 3.5 Consensus size: 12
77587094 CTTCTATTTC
77587104 AAAAAAAAA-AG
1 AAAAAAAAAGAG
77587115 AAAAGAAAAAGAG
1 AAAA-AAAAAGAG
77587128 AAAAAATAAAGAG
1 AAAAAA-AAAGAG
77587141 AAAAAA
1 AAAAAA
77587147 GAAAAAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.14
12 7 0.24
13 18 0.62
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:77587160 original size:20 final size:21
Alignment explanation
Indices: 77587108--77587154 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
77587098 TATTTCAAAA
*
77587108 AAAAAAGAAA-AGAAAAAGAG
1 AAAAAATAAAGAGAAAAAGAG
77587128 AAAAAATAAAGAGAAAAA-AG
1 AAAAAATAAAGAGAAAAAGAG
77587148 AAAAAAT
1 AAAAAAT
77587155 GGAGAGGCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (21 bp):
AAAAAATAAAGAGAAAAAGAG
Found at i:77588204 original size:88 final size:88
Alignment explanation
Indices: 77588036--77588204 Score: 198
Period size: 88 Copynumber: 1.9 Consensus size: 88
77588026 AAACAAGATT
* * * * * *
77588036 TGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAGTAGATCTGACATTCCTGTGCTCTCTGC
1 TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCTAACATTCCAGTGCTCTATAC
* **
77588101 GAAGTAGATTGAAGATTTCAGCA
66 GAAGCAGATCCAAGATTTCAGCA
* * *
77588124 TGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTAACCTT-CAGATG-TTTATA
1 TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCTAACATTCCAG-TGCTCTATA
77588187 CTGAAGCAGATCCAAGAT
65 C-GAAGCAGATCCAAGAT
77588205 GATTTGACAT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
87 6 0.09
88 61 0.91
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (88 bp):
TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCTAACATTCCAGTGCTCTATAC
GAAGCAGATCCAAGATTTCAGCA
Found at i:77588314 original size:119 final size:119
Alignment explanation
Indices: 77588152--77588632 Score: 784
Period size: 119 Copynumber: 4.0 Consensus size: 119
77588142 AGGGAACAGA
*
77588152 TCAAAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTC
*
77588217 TTGTGTTTACAAGGAACAAATCGAGGACATTGCAGATTTGACTCTCAGACGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
**
77588271 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTC
77588336 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
* **
77588390 TCAAATATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTC
* * *
77588455 TTATGTTTACAAGAAACAAATCAAGGACATAGCAGATTTGACTCTCAGACGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
* * *
77588509 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGGTTT-AGCATC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGA-CATT
* * * * *
77588573 CTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTC
65 CTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
77588628 TCAAA
1 TCAAA
77588633 CAGACTCAAG
Statistics
Matches: 339, Mismatches: 22, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
119 339 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (119 bp):
TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTC
TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
Found at i:77588661 original size:83 final size:83
Alignment explanation
Indices: 77588556--77588824 Score: 457
Period size: 83 Copynumber: 3.2 Consensus size: 83
77588546 AAAGCAGATC
*
77588556 CAAGATGGTTTAGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
77588621 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
*
77588639 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGTAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
* *
77588704 TATGTTCTTAAACAGACT
66 AATGTTCTCAAACAGACT
* * *
77588722 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGACCTTGCAGATATGATTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
77588787 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* *
77588805 CAAGATGATTTGACATCCTT
1 CAAGATGGTTTGGCATCCTT
77588825 ACAAATCGAA
Statistics
Matches: 174, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 174 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:77589258 original size:35 final size:35
Alignment explanation
Indices: 77589209--77589368 Score: 174
Period size: 35 Copynumber: 4.7 Consensus size: 35
77589199 ATAATCTTCA
* *
77589209 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
77589245 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
* *
77589280 ATGATTATCATATCTAAGAT-TG---CAATCTTAGAT
1 ATGATT-GCA-ATCTTAGATATGATACAATCTTAGAT
* *
77589313 ATGA-TACAATCTTAGATATGATTGCAATCTTAG--
1 ATGATTGCAATCTTAGATATGA-TACAATCTTAGAT
77589346 A-GATTGCAATCTTAGATATGATA
1 ATGATTGCAATCTTAGATATGATA
77589369 ATCATATCTA
Statistics
Matches: 108, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
30 8 0.07
31 4 0.04
32 4 0.04
33 32 0.30
35 43 0.40
36 9 0.08
37 8 0.07
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:77589311 original size:50 final size:50
Alignment explanation
Indices: 77589247--77589406 Score: 222
Period size: 50 Copynumber: 3.2 Consensus size: 50
77589237 TCTTAAATAT
77589247 GATTGCAATCTTAGATATGATACAATCTTAGATATGATTATCATATCTAA
1 GATTGCAATCTTAGATATGATACAATCTTAGATATGATTATCATATCTAA
*
77589297 GATTGCAATCTTAGATATGATACAATCTTAGATATGATT-GCA-ATCTTAGA
1 GATTGCAATCTTAGATATGATACAATCTTAGATATGATTATCATATC-TA-A
*
77589347 GATTGCAATCTTAGATATGATAATCATATCTAAGAT-TG--TATCATATCTAA
1 GATTGCAATCTTAGATATGAT-A-CA-ATCTTAGATATGATTATCATATCTAA
77589397 GATTGCAATC
1 GATTGCAATC
77589407 ATATCTAAGA
Statistics
Matches: 100, Mismatches: 3, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
48 3 0.03
49 4 0.04
50 73 0.73
51 5 0.05
52 7 0.07
53 8 0.08
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (50 bp):
GATTGCAATCTTAGATATGATACAATCTTAGATATGATTATCATATCTAA
Found at i:77589352 original size:15 final size:15
Alignment explanation
Indices: 77589296--77589361 Score: 69
Period size: 15 Copynumber: 4.1 Consensus size: 15
77589286 ATCATATCTA
77589296 AGATTGCAATCTTAG
1 AGATTGCAATCTTAG
* *
77589311 ATATGATACAATCTTAG
1 AGAT--TGCAATCTTAG
77589328 ATATGATTGCAATCTTAG
1 --A-GATTGCAATCTTAG
77589346 AGATTGCAATCTTAG
1 AGATTGCAATCTTAG
77589361 A
1 A
77589362 TATGATAATC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
15 18 0.43
16 1 0.02
17 10 0.24
18 10 0.24
19 1 0.02
20 2 0.05
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (15 bp):
AGATTGCAATCTTAG
Found at i:77589408 original size:35 final size:35
Alignment explanation
Indices: 77589368--77590190 Score: 1628
Period size: 35 Copynumber: 23.5 Consensus size: 35
77589358 TAGATATGAT
77589368 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77589403 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77589438 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77589473 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77589508 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77589543 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77589578 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77589613 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77589648 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77589683 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77589718 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77589753 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77589788 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77589823 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77589858 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77589893 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77589928 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77589963 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77589998 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77590033 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77590068 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77590103 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
77590138 AATCATATCTAAGATTGTATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGC
*
77590173 ATATCACATCTAAGATTG
1 A-ATCATATCTAAGATTG
77590191 CATATCATTG
Statistics
Matches: 786, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
35 771 0.98
36 15 0.02
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (35 bp):
AATCATATCTAAGATTGTATCATATCTAAGATTGC
Found at i:77590206 original size:17 final size:18
Alignment explanation
Indices: 77589374--77590195 Score: 349
Period size: 17 Copynumber: 46.9 Consensus size: 18
77589364 TGATAATCAT
*
77589374 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77589391 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77589409 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77589426 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77589444 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77589461 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77589479 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77589496 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77589514 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77589531 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77589549 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77589566 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77589584 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77589601 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77589619 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77589636 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77589654 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77589671 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77589689 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77589706 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77589724 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77589741 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77589759 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77589776 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77589794 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77589811 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77589829 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77589846 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77589864 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77589881 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77589899 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77589916 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77589934 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77589951 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77589969 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77589986 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77590004 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77590021 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77590039 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77590056 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77590074 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77590091 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77590109 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
*
77590126 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77590144 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
77590161 ATCTAAGATTGCATATCAC
1 ATCTAAGATTGCATAT-AC
77590180 ATCTAAGATTGCATAT
1 ATCTAAGATTGCATAT
77590196 CATTGAAGAT
Statistics
Matches: 736, Mismatches: 1, Indels: 134
0.85 0.00 0.15
Matches are distributed among these distances:
17 363 0.49
18 352 0.48
19 21 0.03
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (18 bp):
ATCTAAGATTGCATATAC
Found at i:77591068 original size:207 final size:207
Alignment explanation
Indices: 77590602--77591262 Score: 1024
Period size: 207 Copynumber: 3.2 Consensus size: 207
77590592 AAATCTGCTT
* * * * *
77590602 CTTCAATTTGTTCCCTGACAATACAGATATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * * *
77590667 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAAGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** * * *
77590732 GGATC-TGCTTCAGTCTAATCATCT-AAAGGTTAGATCCGCTATATGTCTGTCCTCCGTCGAATA
131 GGATCTTGCTTCAGTATAAACATCTGAAA-GCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATA
*
77590795 TGGAGATGCCAAA
195 TGGAGACGCCAAA
77590808 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
77590873 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTAGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * *
77590938 GGATCTTGTTTCAGTATAAACATTTGAAAGCCAGATCTACTATGTGTCTGCCCTCCATCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAAGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
77591003 GGAGACGCCAAA
196 GGAGACGCCAAA
*
77591015 CTTCGATTTGTTCTCTGCCAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
77591080 GTGAAAGCCAAAGCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
77591145 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGCCTGCCCTCCGTCAAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAAGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
77591210 GGAGACGCCAAA
196 GGAGACGCCAAA
*
77591222 CTTCGATTTGTTCTCTGA-TA-ACAGAGATGCCAAATCATCTT
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTT
77591263 GGATCTACTT
Statistics
Matches: 418, Mismatches: 35, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
205 21 0.05
206 126 0.30
207 268 0.64
208 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAAGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:77591498 original size:43 final size:43
Alignment explanation
Indices: 77591362--77591587 Score: 178
Period size: 43 Copynumber: 5.3 Consensus size: 43
77591352 ATCTGCTCCA
*
77591362 CTACTGCTTAGGGAGATAAGATCCGTAATTTTGACCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTGACCTGTTACC
* * ** * * * *
77591405 CTACTGCTTA-GGCGATTAGGGCGAGTCATCATTGATCTGTT-CC
1 CTACTGCTTAGGGAGATAAGATC-TGTAAT-TTTGACCTGTTACC
77591448 GCTACTGCTTAGGGAGATAAGATCTGTAATTTT-AGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTGA-CCTGTTACC
* * * * * * *
77591492 CTACTGCTTAGGGGGTTAAG-GC-G-AGTTTCGATCTGCT-CC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTGACCTGTTACC
* * * *
77591531 ACTACTGCTTAGAGAGATAAGATCTGCAAATTTAACCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTGACCTGTTACC
77591575 CTACTGCTTAGGG
1 CTACTGCTTAGGG
77591588 GATTAAGGCA
Statistics
Matches: 137, Mismatches: 34, Indels: 24
0.70 0.17 0.12
Matches are distributed among these distances:
39 2 0.01
40 25 0.18
41 3 0.02
42 11 0.08
43 61 0.45
44 27 0.20
45 8 0.06
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTTGACCTGTTACC
Found at i:77591570 original size:83 final size:84
Alignment explanation
Indices: 77591307--77591596 Score: 413
Period size: 87 Copynumber: 3.4 Consensus size: 84
77591297 TCTGCTATAC
*
77591307 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TCTTCGATCTGCTCCACTACTGCTT
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTGCTT
*
77591371 AGGGAGATAAGATCCGTAAT
65 AGGGAGATAAGATCTGTAAT
* * * * * *
77591391 TTTGACCTGTTACCCTACTGCTTAGGCGATTAGGGCGAGTCATCATTGATCTGTTCCGCTACTGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGC
77591456 TTAGGGAGATAAGATCTGTAAT
63 TTAGGGAGATAAGATCTGTAAT
* *
77591478 TTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGT-TTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
* * *
77591542 GAGAGATAAGATCTGCAAA
66 GGGAGATAAGATCTGTAAT
77591561 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
77591597 ACTGAATTTT
Statistics
Matches: 181, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
83 71 0.39
84 35 0.19
85 2 0.01
87 73 0.40
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (84 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTGTAAT
Found at i:77593630 original size:13 final size:13
Alignment explanation
Indices: 77593599--77593629 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
77593589 CTTTTTTCTC
77593599 TTTTTTCTTTTTA
1 TTTTTTCTTTTTA
77593612 TTTTTTC-TTTTA
1 TTTTTTCTTTTTA
77593624 TTTTTT
1 TTTTTT
77593630 TGCCTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTTCTTTTTA
Found at i:77595153 original size:11 final size:11
Alignment explanation
Indices: 77595137--77595161 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
77595127 ATATATAATA
77595137 TTTTTTCTTTT
1 TTTTTTCTTTT
77595148 TTTTTTCTTTT
1 TTTTTTCTTTT
77595159 TTT
1 TTT
77595162 GAGATCGATG
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:77599036 original size:25 final size:25
Alignment explanation
Indices: 77598999--77599051 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
77598989 AATTAAATGA
** *
77598999 AATATATTTTTTAA-AAACAATGAAT
1 AATATATAATTTAATAAAAAAT-AAT
77599024 AATATATAATTTAATAAAAAATAAT
1 AATATATAATTTAATAAAAAATAAT
77599049 AAT
1 AAT
77599052 TTGATATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
AATATATAATTTAATAAAAAATAAT
Found at i:77599461 original size:35 final size:36
Alignment explanation
Indices: 77599418--77599498 Score: 146
Period size: 35 Copynumber: 2.3 Consensus size: 36
77599408 GTATATAATT
*
77599418 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
77599453 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
77599489 TCTAAGATTG
1 TCTAAGATTG
77599499 CATATCATTG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 29 0.66
36 15 0.34
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGTATCATATCTAAGATTGCATATCACA
Found at i:77599504 original size:19 final size:19
Alignment explanation
Indices: 77599401--77599506 Score: 141
Period size: 17 Copynumber: 5.8 Consensus size: 19
77599391 TCATATCTTT
* * *
77599401 TAAGATTGTATATAATTTC
1 TAAGATTGCATATCATATC
77599420 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
77599437 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATCATATC
77599455 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
*
77599472 TAAGATTGCATATCACATC
1 TAAGATTGCATATCATATC
77599491 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
77599507 TGAAGATTAT
Statistics
Matches: 78, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
17 31 0.40
18 16 0.21
19 31 0.40
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:77599513 original size:36 final size:35
Alignment explanation
Indices: 77599418--77599514 Score: 126
Period size: 35 Copynumber: 2.7 Consensus size: 35
77599408 GTATATAATT
* *
77599418 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCGAAGATTGCAATCACA
*
77599453 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCGAAGATTGCA-ATCACA
77599489 TCTAAGATTGCATATCAT-T-GAAGATT
1 TCTAAGATTG--TATCATATCGAAGATT
77599515 ATATTTCCAT
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
35 29 0.51
36 21 0.37
37 1 0.02
38 6 0.11
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCGAAGATTGCAATCACA
Found at i:77599514 original size:17 final size:18
Alignment explanation
Indices: 77599434--77599503 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
77599424 ATTGTATCAT
*
77599434 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
77599452 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
77599469 ATCTAAGATTGCATATCAC
1 ATCTAAGATTGCATAT-AC
77599488 ATCTAAGATTGCATAT
1 ATCTAAGATTGCATAT
77599504 CATTGAAGAT
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
17 16 0.33
18 11 0.23
19 21 0.44
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (18 bp):
ATCTAAGATTGCATATAC
Found at i:77603188 original size:28 final size:28
Alignment explanation
Indices: 77603156--77603212 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
77603146 TGAAAAAGAA
77603156 AGAAGAATAGAAGATGAAATGATGATTC
1 AGAAGAATAGAAGATGAAATGATGATTC
77603184 AGAAGAATAGAAGATGAAATGATGATTC
1 AGAAGAATAGAAGATGAAATGATGATTC
77603212 A
1 A
77603213 ACTTTCACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.51, C:0.04, G:0.25, T:0.21
Consensus pattern (28 bp):
AGAAGAATAGAAGATGAAATGATGATTC
Found at i:77603850 original size:22 final size:24
Alignment explanation
Indices: 77603809--77603854 Score: 78
Period size: 22 Copynumber: 2.0 Consensus size: 24
77603799 AACACAACTT
77603809 TTTTATGTCAACTTTTTTTAGCTA
1 TTTTATGTCAACTTTTTTTAGCTA
77603833 TTTTATGTC-AC-TTTTTTAGCTA
1 TTTTATGTCAACTTTTTTTAGCTA
77603855 ATAATAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.50
23 2 0.09
24 9 0.41
ACGTcount: A:0.20, C:0.13, G:0.09, T:0.59
Consensus pattern (24 bp):
TTTTATGTCAACTTTTTTTAGCTA
Found at i:77603883 original size:22 final size:21
Alignment explanation
Indices: 77603853--77603900 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
77603843 CTTTTTTAGC
*
77603853 TAATAATAACTAAATTAAATT
1 TAATTATAACTAAATTAAATT
* **
77603874 ATAATTATAATTATTTTAAATT
1 -TAATTATAACTAAATTAAATT
77603896 TAATT
1 TAATT
77603901 TAGTAACATG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATTATAACTAAATTAAATT
Found at i:77609957 original size:11 final size:11
Alignment explanation
Indices: 77609941--77609968 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
77609931 GTCGCCTCTT
77609941 CCTTCGTTCTA
1 CCTTCGTTCTA
77609952 CCTTCGTTCTA
1 CCTTCGTTCTA
77609963 CCTTCG
1 CCTTCG
77609969 CCTCCCGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.39, G:0.11, T:0.43
Consensus pattern (11 bp):
CCTTCGTTCTA
Found at i:77613501 original size:18 final size:17
Alignment explanation
Indices: 77613473--77613507 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
77613463 TATATTAAGA
*
77613473 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
77613490 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
77613508 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:77613754 original size:16 final size:16
Alignment explanation
Indices: 77613733--77613801 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
77613723 GATTAGCTAT
77613733 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
77613749 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
77613766 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
77613782 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
77613798 TACA
1 TACA
77613802 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:77613775 original size:33 final size:32
Alignment explanation
Indices: 77613733--77613801 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
77613723 GATTAGCTAT
77613733 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
77613766 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
77613798 TACA
1 TACA
77613802 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:77616950 original size:79 final size:79
Alignment explanation
Indices: 77616819--77616978 Score: 311
Period size: 79 Copynumber: 2.0 Consensus size: 79
77616809 CTAAAAGAAT
77616819 TTAATATAAAATACTAAATTCACACGTGACTTAAATATGAGGCTGCGGACATTATTGCCCTTCCG
1 TTAATATAAAATACTAAATTCACACGTGACTTAAATATGAGGCTGCGGACATTATTGCCCTTCCG
77616884 AATTTCAACACGTG
66 AATTTCAACACGTG
*
77616898 TTAATATAAAATACTAAATTCACACGTGACTTAAATATGAGGCTGCGGACATTATTGTCCTTCCG
1 TTAATATAAAATACTAAATTCACACGTGACTTAAATATGAGGCTGCGGACATTATTGCCCTTCCG
77616963 AATTTCAACACGTG
66 AATTTCAACACGTG
77616977 TT
1 TT
77616979 TATTTAGGCT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (79 bp):
TTAATATAAAATACTAAATTCACACGTGACTTAAATATGAGGCTGCGGACATTATTGCCCTTCCG
AATTTCAACACGTG
Found at i:77622721 original size:102 final size:102
Alignment explanation
Indices: 77622552--77622741 Score: 258
Period size: 102 Copynumber: 1.9 Consensus size: 102
77622542 CGAAATGATA
*
77622552 TGAATTTATAATGACTTCAACCAAAAATTCCGAAAGACTCAAACTCAAATGAACCTCAACCCAAA
1 TGAATTTATAATGACTTCAACCAAAAATTCCGAAAGAATCAAACTCAAATGAACCTCAACCCAAA
*
77622617 ATTGAACTAACCTAAAATGATTTGAAAGTTTTAAAAT
66 ATTGAACTAACCTAAAATAATTTGAAAGTTTTAAAAT
* * * * ** *
77622654 TGAATTTATAATGACTTCATCAGAAAAATT-CGAAAGAATCGAATTCAAATGAA-CTCCAATTCG
1 TGAATTTATAATGACTTCAAC-CAAAAATTCCGAAAGAATCAAACTCAAATGAACCT-CAACCCA
*
77622717 AAATTGAACTGACCTAAAATAATTT
64 AAATTGAACTAACCTAAAATAATTT
77622742 AAAAAATTTA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
101 2 0.03
102 67 0.88
103 7 0.09
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.28
Consensus pattern (102 bp):
TGAATTTATAATGACTTCAACCAAAAATTCCGAAAGAATCAAACTCAAATGAACCTCAACCCAAA
ATTGAACTAACCTAAAATAATTTGAAAGTTTTAAAAT
Found at i:77623328 original size:15 final size:16
Alignment explanation
Indices: 77623297--77623340 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
77623287 CTTGATTCTT
*
77623297 AAAATTTTAAAATTAA
1 AAAAATTTAAAATTAA
77623313 AAAAATTTAAAA-TAA
1 AAAAATTTAAAATTAA
*
77623328 AAATTATTTAAAA
1 AAA-AATTTAAAA
77623341 GTTCATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAATTTAAAATTAA
Found at i:77624945 original size:30 final size:30
Alignment explanation
Indices: 77624905--77624986 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 30
77624895 AATAAGTTAC
* *
77624905 TCACATAAGCTGACAATATATCAGAATTGT
1 TCACACAAGCTGACATTATATCAGAATTGT
* *
77624935 TCATACAAGCTGACATTATAAT-AGAGTTGT
1 TCACACAAGCTGACATTAT-ATCAGAATTGT
*
77624965 TCACACAAGCTAACATTATATC
1 TCACACAAGCTGACATTATATC
77624987 GAGGTTACCC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
29 2 0.05
30 40 0.91
31 2 0.05
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (30 bp):
TCACACAAGCTGACATTATATCAGAATTGT
Found at i:77632932 original size:15 final size:14
Alignment explanation
Indices: 77632893--77632939 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
77632883 TTTGCATGAA
*
77632893 TTTTCTTTTTCTTGT
1 TTTTC-TTTTCTTTT
*
77632908 TTGT-TTTTCTTTT
1 TTTTCTTTTCTTTT
77632921 CTTTTCTTTTCTTTT
1 -TTTTCTTTTCTTTT
77632936 TTTT
1 TTTT
77632940 TGTAGGTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 8 0.30
14 7 0.26
15 12 0.44
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (14 bp):
TTTTCTTTTCTTTT
Found at i:77641679 original size:15 final size:15
Alignment explanation
Indices: 77641661--77641702 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
77641651 TCCATAACGG
*
77641661 AGAAATCCAGAATAT
1 AGAAATCCAGAATAA
77641676 AGAAATCCA-ACATAA
1 AGAAATCCAGA-ATAA
77641691 AGAAATCCAGAA
1 AGAAATCCAGAA
77641703 GAAAATATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.57, C:0.17, G:0.12, T:0.14
Consensus pattern (15 bp):
AGAAATCCAGAATAA
Found at i:77649086 original size:17 final size:17
Alignment explanation
Indices: 77649064--77649106 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
77649054 ATTTCATTTA
**
77649064 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
77649081 AAATGTCAATTAACATC
1 AAATGTCAATTAACATC
77649098 AAAT-TCAAT
1 AAATGTCAAT
77649107 ATAATCATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:77656310 original size:24 final size:24
Alignment explanation
Indices: 77656283--77656330 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
77656273 GGAAAACTTT
77656283 ACTAAAACGACCCATTCAGGTTTG
1 ACTAAAACGACCCATTCAGGTTTG
77656307 ACTAAAACGACCCATTCAGGTTTG
1 ACTAAAACGACCCATTCAGGTTTG
77656331 GAATTATCTC
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (24 bp):
ACTAAAACGACCCATTCAGGTTTG
Found at i:77658717 original size:18 final size:19
Alignment explanation
Indices: 77658671--77658717 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
77658661 TTAAATTTTT
77658671 TTTAAAAATAATTTTTATAC
1 TTTAAAAA-AATTTTTATAC
**
77658691 TTT-TTAAAATTTTTATA-
1 TTTAAAAAAATTTTTATAC
77658708 TTTAAAAAAA
1 TTTAAAAAAA
77658718 AGTAATTTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
17 3 0.14
18 14 0.64
19 2 0.09
20 3 0.14
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTAAAAAAATTTTTATAC
Found at i:77660305 original size:15 final size:15
Alignment explanation
Indices: 77660285--77660314 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
77660275 TTTAATCATT
*
77660285 TATAAATTATAAAAA
1 TATAAACTATAAAAA
77660300 TATAAACTATAAAAA
1 TATAAACTATAAAAA
77660315 ATTAAAATTT
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:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:77661915 original size:19 final size:19
Alignment explanation
Indices: 77661891--77661928 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
77661881 ACTCGTTTAA
77661891 AATTTGAGCTAAGATTGAG
1 AATTTGAGCTAAGATTGAG
77661910 AATTTGAGCTAAGATTGAG
1 AATTTGAGCTAAGATTGAG
77661929 TTCCAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (19 bp):
AATTTGAGCTAAGATTGAG
Found at i:77666119 original size:42 final size:42
Alignment explanation
Indices: 77666058--77666141 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
77666048 GGCATGGTCT
*
77666058 TGCTACAAGTTTGAGTCCTGAAAATGCAAATAATTCATTAAA
1 TGCTACAAGTTTGAATCCTGAAAATGCAAATAATTCATTAAA
77666100 TGCTACAAGTTTGAATCCTGAAAATGCAAATAATTCATTAAA
1 TGCTACAAGTTTGAATCCTGAAAATGCAAATAATTCATTAAA
77666142 AAAGAGTCAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (42 bp):
TGCTACAAGTTTGAATCCTGAAAATGCAAATAATTCATTAAA
Found at i:77666228 original size:18 final size:18
Alignment explanation
Indices: 77666207--77666242 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
77666197 TACTATGCTA
77666207 AAATTTAGATTTAAAATC
1 AAATTTAGATTTAAAATC
77666225 AAATTTAGATTTAAAATC
1 AAATTTAGATTTAAAATC
77666243 CTCCTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (18 bp):
AAATTTAGATTTAAAATC
Found at i:77666395 original size:33 final size:34
Alignment explanation
Indices: 77666339--77666405 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 34
77666329 TTAAAGTGAT
77666339 TGCATAAAATTATTTTTAAGCTTTAAACATTAGAC
1 TGCATAAAATTA-TTTTAAGCTTTAAACATTAGAC
77666374 TGCATAAAATTA-TTTAAGCTTTAAACATTAGA
1 TGCATAAAATTATTTTAAGCTTTAAACATTAGA
77666406 TTGACATGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 20 0.62
35 12 0.38
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (34 bp):
TGCATAAAATTATTTTAAGCTTTAAACATTAGAC
Found at i:77670388 original size:65 final size:65
Alignment explanation
Indices: 77670280--77670414 Score: 189
Period size: 65 Copynumber: 2.1 Consensus size: 65
77670270 CTATTTTTAA
* * * * * *
77670280 ATTTATACTATTTTATATTATGTTAATATCATGCTTAAGTCTAACACGACTTGACCCACAAACAC
1 ATTTATAATACTTTATATTATGTCAATATCATACTTAAATCTAACACGACTTAACCCACAAACAC
* *
77670345 ATTTATAATACTTTATATTATGTCAATATCATACTTAAATCTAACCCGACTTAACCTACAAACAC
1 ATTTATAATACTTTATATTATGTCAATATCATACTTAAATCTAACACGACTTAACCCACAAACAC
*
77670410 CTTTA
1 ATTTA
77670415 CTTTAAAATC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (65 bp):
ATTTATAATACTTTATATTATGTCAATATCATACTTAAATCTAACACGACTTAACCCACAAACAC
Found at i:77671439 original size:16 final size:16
Alignment explanation
Indices: 77671412--77671453 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
77671402 TCAAATTGAA
*
77671412 TATTTTTT-ATATTAT
1 TATTTTTTAATATAAT
77671427 T-TGTTTTTAATATAAT
1 TAT-TTTTTAATATAAT
77671443 TATTTTTTAAT
1 TATTTTTTAAT
77671454 TTGTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 1 0.04
15 6 0.26
16 15 0.65
17 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TATTTTTTAATATAAT
Found at i:77672263 original size:20 final size:20
Alignment explanation
Indices: 77672214--77672264 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
77672204 CTTTTGAAAT
* *
77672214 TTTGGTATAATCTTAAAGATA
1 TTTGGTA-AATCTTAAAAAAA
*
77672235 -TTAGTAAATCTTAAAAAAA
1 TTTGGTAAATCTTAAAAAAA
77672254 TTTGGTAAATC
1 TTTGGTAAATC
77672265 CTTGAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (20 bp):
TTTGGTAAATCTTAAAAAAA
Found at i:77672497 original size:20 final size:20
Alignment explanation
Indices: 77672457--77672511 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
77672447 TAGTATATCC
77672457 TTAAAAATTTT-A-ATAAAT
1 TTAAAAATTTTGATATAAAT
* *
77672475 TTAAATATTTTGATATAATT
1 TTAAAAATTTTGATATAAAT
*
77672495 TTAAAAATTTTGGTATA
1 TTAAAAATTTTGATATA
77672512 TTAAAATGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 10 0.32
19 1 0.03
20 20 0.65
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
TTAAAAATTTTGATATAAAT
Found at i:77672584 original size:19 final size:19
Alignment explanation
Indices: 77672560--77672630 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
77672550 AAAGTTTAAG
77672560 AAATTTTGATATAACTTTA
1 AAATTTTGATATAACTTTA
* * *
77672579 AAATTTTTGATACATCCTTAA
1 AAA-TTTTGATATA-ACTTTA
* *
77672600 AAATTTAGCTATAACTTTA
1 AAATTTTGATATAACTTTA
77672619 AATATTTTGATA
1 AA-ATTTTGATA
77672631 AGTATTTAGA
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
19 9 0.23
20 23 0.59
21 7 0.18
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (19 bp):
AAATTTTGATATAACTTTA
Found at i:77672644 original size:40 final size:40
Alignment explanation
Indices: 77672558--77672647 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 40
77672548 TAAAAGTTTA
* *
77672558 AGAAATTTTGATATAACTTTAAAATTTTTGATACATCCTT
1 AGAAATTTAGATATAACTTTAAAATTTTTGATACATACTT
* * *
77672598 AAAAATTTAGCTATAACTTT-AAATATTTTGATA-AGTATTT
1 AGAAATTTAGATATAACTTTAAAAT-TTTTGATACA-TACTT
77672638 AGAAATTTAG
1 AGAAATTTAG
77672648 GTTTAAGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
39 5 0.12
40 37 0.88
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (40 bp):
AGAAATTTAGATATAACTTTAAAATTTTTGATACATACTT
Found at i:77673243 original size:20 final size:19
Alignment explanation
Indices: 77673220--77673270 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
77673210 TTGTATAACG
77673220 TTAGATATTTTGATAAA-TAT
1 TTAGA-ATTTTGATAAACT-T
77673240 TTAGGAATTTTGATAAACTT
1 TTA-GAATTTTGATAAACTT
*
77673260 TTAGAAATTTG
1 TTAGAATTTTG
77673271 GTTTAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 7 0.25
20 18 0.64
21 3 0.11
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (19 bp):
TTAGAATTTTGATAAACTT
Found at i:77681080 original size:25 final size:25
Alignment explanation
Indices: 77681028--77681078 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
77681018 TTGTATTTGA
*
77681028 TATTTTAAATAAATTTTATTTATTT
1 TATTTTAAATAAATGTTATTTATTT
* *
77681053 TATTTTATATAAATAGTTGTTTATTT
1 TATTTTAAATAAAT-GTTATTTATTT
77681079 ATATATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (25 bp):
TATTTTAAATAAATGTTATTTATTT
Found at i:77681610 original size:87 final size:88
Alignment explanation
Indices: 77681352--77681792 Score: 356
Period size: 87 Copynumber: 5.2 Consensus size: 88
77681342 TGTTTAACAA
* * * * ** *
77681352 ATTTTATTTCTAAAACGAGTATT-AAACTAAATAAAATC-AGTTTCGGGA-TTTATTTTCGCTGT
1 ATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATCTA-TTTTGAGATTTTATTCCCGCCGT
* * *
77681414 CCAATAGATATTATTCCAATTTTG
65 TCAACAGATTTTATTCCAATTTTG
* * * * * * * *
77681438 ATTTGATTTCCAAAATGAGTATTAAAATTAAATAAAATTTA-ATTCAAAATTTATTCCCGCTGTT
1 ATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATCTATTTTGAGATTTTATTCCCGCCGTT
*
77681502 CAACAGATTTTATTCCAATTTTA
66 CAACAGATTTTATTCCAATTTTG
* *
77681525 ATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATCTATTTTGAGATTTTTTTCCCACCGTT
1 ATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATCTATTTTGAGATTTTATTCCCGCCGTT
* * * *
77681590 TAATATATTTTATTCCATTTTTG
66 CAACAGATTTTATTCCAATTTTG
* * * * * *
77681613 ATTTTGTTGCCAAAA-GAGAAACTAAAATGAAATAAAATCTGTTTTGAGA-TTTATTCCCGCCGT
1 ATTTTATTTCCAAAACGAG-TATTAAAATTAAATAAAATCTATTTTGAGATTTTATTCCCGCCGT
* *
77681676 TTAACATATTTTATT-CAATTTTG
65 TCAACAGATTTTATTCCAATTTTG
* ** * * * * *
77681699 ATTTTGTTTCC-AAATTAGAATT-AAATTGAAT--AATC---TTCGGGA-TTTATTCCCGCTGTT
1 ATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATCTATTTTGAGATTTTATTCCCGCCGTT
* * *
77681756 TAACAGATTTTATT-CGATCTTG
66 CAACAGATTTTATTCCAATTTTG
77681778 ATTTTATTTCCAAAA
1 ATTTTATTTCCAAAA
77681793 AAAGACTTAA
Statistics
Matches: 295, Mismatches: 53, Indels: 20
0.80 0.14 0.05
Matches are distributed among these distances:
79 48 0.16
80 3 0.01
82 4 0.01
84 7 0.02
85 6 0.02
86 41 0.14
87 112 0.38
88 74 0.25
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (88 bp):
ATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATCTATTTTGAGATTTTATTCCCGCCGTT
CAACAGATTTTATTCCAATTTTG
Found at i:77681627 original size:88 final size:86
Alignment explanation
Indices: 77681424--77681792 Score: 360
Period size: 87 Copynumber: 4.3 Consensus size: 86
77681414 CCAATAGATA
* * ** *
77681424 TTATTCCAATTTTGA-TTTGATTTCCAAAATGAGTATTAAAATTAAATAAAATTTAATTCAAAAT
1 TTATTCCAATTTTGATTTTG-TTTCCAAAA-GAGTATTAAAATTAAATAAAATCTATTTTGAGAT
* * *
77681488 TTATTCCCGCTGTTCAACAGATT
64 TTATTCCCGCCGTTTAACATATT
* *
77681511 TTATTCCAATTTTAATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATCTATTTTGAGATT
1 TTATTCCAATTTTGATTTTGTTTCCAAAA-GAGTATTAAAATTAAATAAAATCTATTTTGAGA-T
* * *
77681576 TTTTTCCCACCGTTTAATATATT
64 TTATTCCCGCCGTTTAACATATT
* * * * * *
77681599 TTATTCCATTTTTGATTTTGTTGCCAAAAGAGAAACTAAAATGAAATAAAATCTGTTTTGAGATT
1 TTATTCCAATTTTGATTTTGTTTCCAAAAGAG-TATTAAAATTAAATAAAATCTATTTTGAGATT
77681664 TATTCCCGCCGTTTAACATATT
65 TATTCCCGCCGTTTAACATATT
** * * * *
77681686 TTATT-CAATTTTGATTTTGTTTCCAAATTAGAATT-AAATTGAAT--AATC---TTCGGGATTT
1 TTATTCCAATTTTGATTTTGTTTCCAAAAGAGTATTAAAATTAAATAAAATCTATTTTGAGATTT
* *
77681744 ATTCCCGCTGTTTAACAGATT
66 ATTCCCGCCGTTTAACATATT
* * *
77681765 TTATT-CGATCTTGATTTTATTTCCAAAA
1 TTATTCCAATTTTGATTTTGTTTCCAAAA
77681793 AAAGACTTAA
Statistics
Matches: 239, Mismatches: 40, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
79 51 0.21
82 4 0.02
84 7 0.03
85 3 0.01
86 22 0.09
87 80 0.33
88 72 0.30
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (86 bp):
TTATTCCAATTTTGATTTTGTTTCCAAAAGAGTATTAAAATTAAATAAAATCTATTTTGAGATTT
ATTCCCGCCGTTTAACATATT
Found at i:77681650 original size:175 final size:172
Alignment explanation
Indices: 77681351--77681712 Score: 399
Period size: 175 Copynumber: 2.1 Consensus size: 172
77681341 CTGTTTAACA
* * * *
77681351 AATTTTATTTCTAAAACGAGTATTAAACTAAATAAAATCAGTTTCGGGATTTATTTTCGCTGTCC
1 AATTTTATTTCCAAAACGAGTATTAAACTAAATAAAATCAGTTTCGAGATTTATTTTCACCGTCC
* * * * *
77681416 AATAGATATTATTCCAATTTTGATTTGATTTCCAAAATGAGTATTAAAATTAAATAAAATTTAAT
66 AATAGATATTATTCCAATTTTGATTTGATTGCCAAAATGAGAACTAAAATGAAATAAAATCTAAT
*
77681481 TCAAAATTTATTCCCGCTGTTCAACAGATTTTATTCCAATTTT
131 TCAAAATTTATTCCCGCCGTTCAACAGATTTTATT-CAATTTT
* *
77681524 AATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATCTA-TTTTGAGATTT-TTTTCCCACC
1 AATTTTATTTCCAAAACGAGTATT-AAACTAAATAAAATC-AGTTTCGAGATTTATTTT--CACC
** * * *
77681587 GTTTAATATATTTTATTCCATTTTTGATTTTG-TTGCCAAAA-GAGAAACTAAAATGAAATAAAA
62 GTCCAATAGATATTATTCCAATTTTGA-TTTGATTGCCAAAATGAG-AACTAAAATGAAATAAAA
** ** * * *
77681650 TCTGTTTTGAGATTTATTCCCGCCGTTTAACATATTTTATTCAATTTT
125 TCTAATTCAAAATTTATTCCCGCCGTTCAACAGATTTTATTCAATTTT
* *
77681698 GATTTTGTTTCCAAA
1 AATTTTATTTCCAAA
77681713 TTAGAATTAA
Statistics
Matches: 157, Mismatches: 26, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
173 27 0.17
174 46 0.29
175 80 0.51
176 4 0.03
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (172 bp):
AATTTTATTTCCAAAACGAGTATTAAACTAAATAAAATCAGTTTCGAGATTTATTTTCACCGTCC
AATAGATATTATTCCAATTTTGATTTGATTGCCAAAATGAGAACTAAAATGAAATAAAATCTAAT
TCAAAATTTATTCCCGCCGTTCAACAGATTTTATTCAATTTT
Found at i:77681810 original size:79 final size:79
Alignment explanation
Indices: 77681660--77681811 Score: 198
Period size: 79 Copynumber: 1.9 Consensus size: 79
77681650 TCTGTTTTGA
* * * **
77681660 GATTTATTCCCGCCGTTTAACATATTTTATTCAATTTTGATTTTGTTTCCAAATTAGAATTAAAT
1 GATTTATTCCCGCCGTTTAACAGATTTTATTCAATCTTGATTTTATTTCCAAAAAAGAATTAAAT
**
77681725 TGAATAATCTTCGG
66 CAAATAATCTTCGG
* * *
77681739 GATTTATTCCCGCTGTTTAACAGATTTTATTCGATCTTGATTTTATTTCCAAAAAAAGACTT-AA
1 GATTTATTCCCGCCGTTTAACAGATTTTATTCAATCTTGATTTTATTTCC-AAAAAAGAATTAAA
77681803 TCAAATAAT
65 TCAAATAAT
77681812 TTTGTTTCGG
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
79 54 0.87
80 8 0.13
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (79 bp):
GATTTATTCCCGCCGTTTAACAGATTTTATTCAATCTTGATTTTATTTCCAAAAAAGAATTAAAT
CAAATAATCTTCGG
Found at i:77687721 original size:86 final size:86
Alignment explanation
Indices: 77687576--77687746 Score: 306
Period size: 86 Copynumber: 2.0 Consensus size: 86
77687566 CTTAGATCCC
* * *
77687576 ACATTAGTTAAATACCAAGTGTGAGATGTGTATATTTATGATAACCCACTTGAAGGGTGATTGAA
1 ACATTAGTTAAATACCAAGTGTGAGATGTGTAAATATATGAGAACCCACTTGAAGGGTGATTGAA
*
77687641 TGACTAAGCTTGAAACCTTGT
66 TAACTAAGCTTGAAACCTTGT
77687662 ACATTAGTTAAATACCAAGTGTGAGATGTGTAAATATATGAGAACCCACTTGAAGGGTGATTGAA
1 ACATTAGTTAAATACCAAGTGTGAGATGTGTAAATATATGAGAACCCACTTGAAGGGTGATTGAA
77687727 TAACTAAGCTTGAAACCTTG
66 TAACTAAGCTTGAAACCTTG
77687747 CCTCGTGCGT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (86 bp):
ACATTAGTTAAATACCAAGTGTGAGATGTGTAAATATATGAGAACCCACTTGAAGGGTGATTGAA
TAACTAAGCTTGAAACCTTGT
Found at i:77688707 original size:34 final size:34
Alignment explanation
Indices: 77688667--77688732 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
77688657 TTTCCAATTG
77688667 ATGCTAAGGTGATCATGTCAACATTTCACTTTGT
1 ATGCTAAGGTGATCATGTCAACATTTCACTTTGT
*
77688701 ATGCTAAGGTGATCATGTCACCATTTCACTTT
1 ATGCTAAGGTGATCATGTCAACATTTCACTTT
77688733 CCAATTAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.38
Consensus pattern (34 bp):
ATGCTAAGGTGATCATGTCAACATTTCACTTTGT
Found at i:77688799 original size:34 final size:34
Alignment explanation
Indices: 77688751--77688825 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
77688741 TATGATGTTT
*
77688751 TCACTTAGCCAACATTTAGTAAATTCCAAATACA
1 TCACCTAGCCAACATTTAGTAAATTCCAAATACA
77688785 TCACCTAGCCAACATTTAGTAAATTCCAAATACA
1 TCACCTAGCCAACATTTAGTAAATTCCAAATACA
77688819 TCACCTA
1 TCACCTA
77688826 ACATATTTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.40, C:0.27, G:0.05, T:0.28
Consensus pattern (34 bp):
TCACCTAGCCAACATTTAGTAAATTCCAAATACA
Found at i:77694869 original size:19 final size:20
Alignment explanation
Indices: 77694841--77694880 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
77694831 CTATTTATAC
77694841 TTTAGATTAACTTAA-TTAA
1 TTTAGATTAACTTAACTTAA
*
77694860 TTTAGTTTAACTTAACTTAA
1 TTTAGATTAACTTAACTTAA
77694880 T
1 T
77694881 AAAGGTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTAGATTAACTTAACTTAA
Found at i:77700383 original size:34 final size:34
Alignment explanation
Indices: 77700345--77700409 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
77700335 TCAGTCAAAT
*
77700345 GTAGTTTGGGCCTAAGCCCATTTCAGTTTCAGTA
1 GTAGTTCGGGCCTAAGCCCATTTCAGTTTCAGTA
*
77700379 GTAGTTCGGGCCTTAGCCCATTTCAGTTTCA
1 GTAGTTCGGGCCTAAGCCCATTTCAGTTTCA
77700410 ATATCGTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (34 bp):
GTAGTTCGGGCCTAAGCCCATTTCAGTTTCAGTA
Found at i:77712911 original size:39 final size:37
Alignment explanation
Indices: 77712854--77712929 Score: 107
Period size: 39 Copynumber: 2.0 Consensus size: 37
77712844 GGGATTGATA
* **
77712854 GCAGGAATGGAGTGTAAACTCCTCGCACCACCATGAC
1 GCAGGAATGGAGTATAAACTCCTCAAACCACCATGAC
77712891 GCAGGAATGAGGAGTATAAACTCCTCAAACCACCATGAC
1 GCAGGAAT--GGAGTATAAACTCCTCAAACCACCATGAC
77712930 CATTCACTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 8 0.24
39 26 0.76
ACGTcount: A:0.34, C:0.28, G:0.22, T:0.16
Consensus pattern (37 bp):
GCAGGAATGGAGTATAAACTCCTCAAACCACCATGAC
Found at i:77713293 original size:55 final size:55
Alignment explanation
Indices: 77713195--77713321 Score: 148
Period size: 55 Copynumber: 2.3 Consensus size: 55
77713185 CGAGCCTGCC
* *
77713195 AAAACAACACGGGCGTGCAACACGCCCGTGTGGAAGAATCGTGGGT-GAACCTGTT
1 AAAACAACACGGGCGTGCAACACGCCCGTGTGGAACAACCGT-GGTCGAACCTGTT
* * * * * *
77713250 AAAACAGCACGGGCGTTCGACACGCTCGTGTGGAACACCCGTGGTCGAATCTGTT
1 AAAACAACACGGGCGTGCAACACGCCCGTGTGGAACAACCGTGGTCGAACCTGTT
**
77713305 AAATTAACACGGGCGTG
1 AAAACAACACGGGCGTG
77713322 GGGCTTGCAC
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 3 0.05
55 56 0.95
ACGTcount: A:0.28, C:0.24, G:0.30, T:0.18
Consensus pattern (55 bp):
AAAACAACACGGGCGTGCAACACGCCCGTGTGGAACAACCGTGGTCGAACCTGTT
Found at i:77717501 original size:18 final size:18
Alignment explanation
Indices: 77717480--77717523 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
77717470 GAAGCTGATT
*
77717480 GATCCATTTCAGAAGCCG
1 GATCCATCTCAGAAGCCG
*
77717498 GATCCATCTCAGAAGCTG
1 GATCCATCTCAGAAGCCG
*
77717516 GATTCATC
1 GATCCATC
77717524 ATCAAGACTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (18 bp):
GATCCATCTCAGAAGCCG
Found at i:77718665 original size:18 final size:18
Alignment explanation
Indices: 77718631--77718684 Score: 83
Period size: 18 Copynumber: 3.0 Consensus size: 18
77718621 CTGTGAACCG
*
77718631 TGTGGACCCATAC-GCCCA
1 TGTGG-CCCACACGGCCCA
77718649 TGTGGCCCACACGGCCCA
1 TGTGGCCCACACGGCCCA
77718667 TGTGGCCCACACGGCCCA
1 TGTGGCCCACACGGCCCA
77718685 AATTAGTCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
17 6 0.18
18 28 0.82
ACGTcount: A:0.19, C:0.43, G:0.26, T:0.13
Consensus pattern (18 bp):
TGTGGCCCACACGGCCCA
Found at i:77720770 original size:19 final size:19
Alignment explanation
Indices: 77720733--77720771 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
77720723 TCTAAAATAT
77720733 AAATCACACAATTTAAAAA
1 AAATCACACAATTTAAAAA
77720752 AAATC-CACAATTTACAAAA
1 AAATCACACAATTTA-AAAA
77720771 A
1 A
77720772 TCCACAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.21
Consensus pattern (19 bp):
AAATCACACAATTTAAAAA
Found at i:77720772 original size:17 final size:18
Alignment explanation
Indices: 77720733--77720778 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
77720723 TCTAAAATAT
77720733 AAATCACACAATTTAAAAA
1 AAATC-CACAATTTAAAAA
*
77720752 AAATCCACAATTT-ACAA
1 AAATCCACAATTTAAAAA
77720769 AAATCCACAA
1 AAATCCACAA
77720779 ATAAATCCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 13 0.50
18 8 0.31
19 5 0.19
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.20
Consensus pattern (18 bp):
AAATCCACAATTTAAAAA
Found at i:77721177 original size:5 final size:5
Alignment explanation
Indices: 77721167--77721193 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
77721157 AAAAATGCAT
77721167 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
77721194 GATATAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:77721657 original size:22 final size:23
Alignment explanation
Indices: 77721623--77721666 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
77721613 CTAGGTTGTA
* *
77721623 ATCTCTTTATCTTATTTATTTTT
1 ATCTATTTATCTTATTAATTTTT
77721646 ATCTATTT-TCTTATTAATTTT
1 ATCTATTTATCTTATTAATTTT
77721667 CTCGAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.68
Consensus pattern (23 bp):
ATCTATTTATCTTATTAATTTTT
Found at i:77722543 original size:16 final size:16
Alignment explanation
Indices: 77722522--77722557 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
77722512 TTTTGTTCTT
*
77722522 AAAAAAATAGAAAAAG
1 AAAAAAAGAGAAAAAG
*
77722538 AAAAAAAGAGAGAAAG
1 AAAAAAAGAGAAAAAG
77722554 AAAA
1 AAAA
77722558 CAAAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (16 bp):
AAAAAAAGAGAAAAAG
Found at i:77722573 original size:21 final size:21
Alignment explanation
Indices: 77722532--77722589 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
77722522 AAAAAAATAG
* *
77722532 AAAAAGAAAAAAAGA-GAGAAA
1 AAAAACAAAAAAAAATG-GAAA
*
77722553 GAAAACAAAAAAAAATGGAAA
1 AAAAACAAAAAAAAATGGAAA
* *
77722574 AAAAATAAAACAAAAT
1 AAAAACAAAAAAAAAT
77722590 TTGAGCTTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.05
Consensus pattern (21 bp):
AAAAACAAAAAAAAATGGAAA
Found at i:77723996 original size:3 final size:3
Alignment explanation
Indices: 77723988--77724073 Score: 79
Period size: 3 Copynumber: 29.0 Consensus size: 3
77723978 TGCATAATAG
* * *
77723988 AAT AAT AAT AAT AAT GAA- AAT GAT AAT AAT GAT AAT AAT AAT ACT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
77724033 AAT AAT AAC AAC AAT AAT AA- AA- AAT AGT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
77724074 CTAATTTTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
2 6 0.09
3 58 0.84
4 5 0.07
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:77724170 original size:5 final size:5
Alignment explanation
Indices: 77724153--77724184 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
77724143 AAAGGTAAAG
*
77724153 AATAA AATGA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AA
77724185 ACGCACGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:77725060 original size:21 final size:21
Alignment explanation
Indices: 77725034--77725078 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
77725024 TATATATATG
77725034 TTTTTTAT-TTTCGTATTTCGA
1 TTTTTTATGTTTCG-ATTTCGA
* *
77725055 TTTTTTTTGTTTCGATTTCTA
1 TTTTTTATGTTTCGATTTCGA
77725076 TTT
1 TTT
77725079 CAAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.11, C:0.09, G:0.09, T:0.71
Consensus pattern (21 bp):
TTTTTTATGTTTCGATTTCGA
Found at i:77731467 original size:11 final size:11
Alignment explanation
Indices: 77731451--77731476 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
77731441 AGAATCAAGG
77731451 AAAAATAAAAT
1 AAAAATAAAAT
77731462 AAAAATAAAAT
1 AAAAATAAAAT
77731473 AAAA
1 AAAA
77731477 CCAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:77733588 original size:24 final size:24
Alignment explanation
Indices: 77733560--77733605 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
77733550 ATTAATATTA
77733560 ATATTAACATT-AATAAATATAATT
1 ATATTAACATTAAATAAA-ATAATT
* *
77733584 ATATTGATATTAAATAAAATAA
1 ATATTAACATTAAATAAAATAA
77733606 AAATCTCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
ATATTAACATTAAATAAAATAATT
Found at i:77733819 original size:3 final size:3
Alignment explanation
Indices: 77733811--77733843 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
77733801 GCTAGACAGT
*
77733811 AGA AGA AG- AGA AGA AGA AGA AGA AAA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
77733844 TTAATAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:77734455 original size:6 final size:6
Alignment explanation
Indices: 77734439--77734467 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
77734429 CAAAGGCGGT
77734439 AGGCA- AGGCAG AGGCAG AGGCAG AGGCAG
1 AGGCAG AGGCAG AGGCAG AGGCAG AGGCAG
77734468 CAGTAGTGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.34, C:0.17, G:0.48, T:0.00
Consensus pattern (6 bp):
AGGCAG
Found at i:77739298 original size:17 final size:18
Alignment explanation
Indices: 77739271--77739305 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
77739261 GTGTTTTCCT
*
77739271 GTGTGGGCCCACATGCCC
1 GTGTGGGCCCACACGCCC
77739289 GTGT-GGCCCACACGCCC
1 GTGTGGGCCCACACGCCC
77739306 AGATTGGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.11, C:0.43, G:0.31, T:0.14
Consensus pattern (18 bp):
GTGTGGGCCCACACGCCC
Found at i:77753366 original size:38 final size:38
Alignment explanation
Indices: 77753322--77753436 Score: 122
Period size: 44 Copynumber: 2.9 Consensus size: 38
77753312 TAAATTCATA
77753322 CAGTGTTATTCAGGCTTAGTGCTTAACAGGCTTAGTAC
1 CAGTGTTATTCAGGCTTAGTGCTTAACAGGCTTAGTAC
* * * *
77753360 CGGTGTTATTTAGGCTTAGTGCTAGTGTTATTCAGGCTTAGTGC
1 CAGTGTTATTCAGGCTTAGTGC-----TTA-ACAGGCTTAGTAC
* *
77753404 CAATGTTATTCAGGCTTAGTGCCTAACAGGCTT
1 CAGTGTTATTCAGGCTTAGTGCTTAACAGGCTT
77753437 TGAGCCGGTG
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
38 27 0.44
39 2 0.03
43 3 0.05
44 30 0.48
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (38 bp):
CAGTGTTATTCAGGCTTAGTGCTTAACAGGCTTAGTAC
Found at i:77753377 original size:22 final size:22
Alignment explanation
Indices: 77753348--77753426 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
77753338 TAGTGCTTAA
* *
77753348 CAGGCTTAGTACCGGTGTTATT
1 CAGGCTTAGTGCCAGTGTTATT
* *
77753370 TAGGCTTAGTGCTAGTGTTATT
1 CAGGCTTAGTGCCAGTGTTATT
*
77753392 CAGGCTTAGTGCCAATGTTATT
1 CAGGCTTAGTGCCAGTGTTATT
77753414 CAGGCTTAGTGCC
1 CAGGCTTAGTGCC
77753427 TAACAGGCTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.37
Consensus pattern (22 bp):
CAGGCTTAGTGCCAGTGTTATT
Found at i:77757978 original size:108 final size:108
Alignment explanation
Indices: 77757789--77757994 Score: 376
Period size: 108 Copynumber: 1.9 Consensus size: 108
77757779 GAACAGTAGC
* *
77757789 AAATTGACTTCCATTAACAAAAGAGAAGAAAAGGTCTGGTCAAGAAAACCAGGGGCAACAAAACT
1 AAATTGACTTCCATTAACAAAAGAGAAGAAAAGGCCTGGTCAAGAAAACCAGGAGCAACAAAACT
*
77757854 ACATCAGTCCCAAGAAACCAAACAAACATCAAAAGACGGTATA
66 ACATCAATCCCAAGAAACCAAACAAACATCAAAAGACGGTATA
77757897 AAATTGACTTCCATTAACAAAAGAGAAGAAAAGGCCTGGTCAAGAAAACCAGGAGCAACAAAACT
1 AAATTGACTTCCATTAACAAAAGAGAAGAAAAGGCCTGGTCAAGAAAACCAGGAGCAACAAAACT
*
77757962 ACATCAATCCCGAGAAACCAAACAAACATCAAA
66 ACATCAATCCCAAGAAACCAAACAAACATCAAA
77757995 GACCCAAAAC
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 94 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (108 bp):
AAATTGACTTCCATTAACAAAAGAGAAGAAAAGGCCTGGTCAAGAAAACCAGGAGCAACAAAACT
ACATCAATCCCAAGAAACCAAACAAACATCAAAAGACGGTATA
Found at i:77767303 original size:12 final size:12
Alignment explanation
Indices: 77767286--77767313 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
77767276 TCACATTGAA
77767286 TATTTAAATTTT
1 TATTTAAATTTT
77767298 TATTTAAATTTT
1 TATTTAAATTTT
77767310 TATT
1 TATT
77767314 CAACTTTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTTAAATTTT
Found at i:77767976 original size:5 final size:5
Alignment explanation
Indices: 77767968--77767994 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
77767958 ATACTTTAAT
77767968 TATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TA
77767995 ATATTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:77768224 original size:20 final size:21
Alignment explanation
Indices: 77768177--77768227 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
77768167 TAATCCTTAT
*
77768177 ACCTAATTAACCTTAATCTAA
1 ACCTAATTAACCTTAATCAAA
* *
77768198 A-CAAATTCACC-TAATCAAA
1 ACCTAATTAACCTTAATCAAA
77768217 ACCTAATTAAC
1 ACCTAATTAAC
77768228 TACATTACTA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
19 8 0.33
20 15 0.62
21 1 0.04
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.27
Consensus pattern (21 bp):
ACCTAATTAACCTTAATCAAA
Found at i:77779833 original size:29 final size:30
Alignment explanation
Indices: 77779788--77779855 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
77779778 TGGCCCAAGA
*
77779788 GTAAATACTCAAAATTT-AAGGGATTAA-AGT
1 GTAAATA-TCAAAATTTGAA-GGACTAATAGT
*
77779818 GTAAATATGAAAATTTGAAGGACTAATAGT
1 GTAAATATCAAAATTTGAAGGACTAATAGT
*
77779848 GCAAATAT
1 GTAAATAT
77779856 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 14 0.42
30 19 0.58
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (30 bp):
GTAAATATCAAAATTTGAAGGACTAATAGT
Found at i:77780132 original size:8 final size:8
Alignment explanation
Indices: 77780109--77780133 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
77780099 TTTAATAATA
77780109 TATTTTAT
1 TATTTTAT
77780117 TATTTTAT
1 TATTTTAT
77780125 TATTTTAT
1 TATTTTAT
77780133 T
1 T
77780134 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:77780241 original size:38 final size:38
Alignment explanation
Indices: 77780190--77780266 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
77780180 ACACAATGTA
*
77780190 AACTAACGTGAGAAGAAGAGAGAAAGAAAGAAATTTTT
1 AACTAACGTGAGAAGAAGAGAGAAAGAAAGAAAGTTTT
77780228 AACTAACGTGAGAAGAAGAGAGAAAGAAAGAAAGTTTT
1 AACTAACGTGAGAAGAAGAGAGAAAGAAAGAAAGTTTT
77780266 A
1 A
77780267 CTTTTTTTAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.53, C:0.05, G:0.25, T:0.17
Consensus pattern (38 bp):
AACTAACGTGAGAAGAAGAGAGAAAGAAAGAAAGTTTT
Found at i:77789542 original size:37 final size:35
Alignment explanation
Indices: 77789500--77789619 Score: 100
Period size: 37 Copynumber: 3.3 Consensus size: 35
77789490 TCGGTCATAG
*
77789500 TAACAATATCAATGGCATGTTTATCATGCTTTCAGCT
1 TAACAATATCAATGGCATGCTTATCATGC-TTCAG-T
* * *
77789537 TAACAAT-TCTAGTGGTATGCTTATCATGCTTCTGGTT
1 TAACAATATC-AATGGCATGCTTATCATGCTTC-AG-T
* * * *
77789574 TAGCAATCTCAATAGCGTGCTTATCATGCATTCA-T
1 TAACAATATCAATGGCATGCTTATCATGC-TTCAGT
77789609 TAACAATATCA
1 TAACAATATCA
77789620 TGTCATATAA
Statistics
Matches: 66, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
35 10 0.15
36 5 0.08
37 46 0.70
38 5 0.08
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (35 bp):
TAACAATATCAATGGCATGCTTATCATGCTTCAGT
Found at i:77792775 original size:30 final size:30
Alignment explanation
Indices: 77792741--77792801 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
77792731 TCCTTAACTC
77792741 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
77792771 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
77792801 A
1 A
77792802 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:77794289 original size:14 final size:14
Alignment explanation
Indices: 77794270--77794297 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
77794260 TTGGAAGCTA
77794270 GGAAAATATTTTCC
1 GGAAAATATTTTCC
77794284 GGAAAATATTTTCC
1 GGAAAATATTTTCC
77794298 TGGTTTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
GGAAAATATTTTCC
Found at i:77794479 original size:31 final size:32
Alignment explanation
Indices: 77794443--77794506 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
77794433 TTCATCCAGG
**
77794443 TAAGCC-TTGTTTTTCTTCCGTTCTTCAACTT
1 TAAGCCTTTGTTTTTCTTCAATTCTTCAACTT
*
77794474 TAAGCCTTTTTTTTTCTTCAATTCTTCAACTT
1 TAAGCCTTTGTTTTTCTTCAATTCTTCAACTT
77794506 T
1 T
77794507 TTCCATCTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 6 0.21
32 23 0.79
ACGTcount: A:0.16, C:0.23, G:0.06, T:0.55
Consensus pattern (32 bp):
TAAGCCTTTGTTTTTCTTCAATTCTTCAACTT
Found at i:77797547 original size:46 final size:46
Alignment explanation
Indices: 77797480--77797696 Score: 301
Period size: 46 Copynumber: 4.7 Consensus size: 46
77797470 TGGCAACCTG
*
77797480 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
* * *
77797526 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
* *
77797572 TGTATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
* **
77797618 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAA
* * * *
77797664 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
77797697 TCACGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 155 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
Found at i:77797673 original size:138 final size:130
Alignment explanation
Indices: 77797433--77797696 Score: 359
Period size: 138 Copynumber: 2.0 Consensus size: 130
77797423 TGTGCTCTCA
* *
77797433 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTG
1 GATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGTTG
* * * *
77797498 AAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
66 AAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAACCT
* *
77797563 GATATGAGATGTATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGAC
1 GATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG---AG--TAAGAC
*
77797628 CATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTA
58 CATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACACCA
77797692 TGGCA
122 TGGCA
77797697 TCACGTCAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
130 44 0.38
133 2 0.02
136 1 0.01
137 1 0.01
138 68 0.59
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
GATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGTTG
AAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAACCT
Found at i:77803973 original size:11 final size:11
Alignment explanation
Indices: 77803959--77803983 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
77803949 AGAAGATTAA
77803959 AAGAGAGCTTT
1 AAGAGAGCTTT
77803970 AAGAGAGCTTT
1 AAGAGAGCTTT
77803981 AAG
1 AAG
77803984 GGATTTTCAT
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:0.40, C:0.08, G:0.28, T:0.24
Consensus pattern (11 bp):
AAGAGAGCTTT
Found at i:77804288 original size:9 final size:9
Alignment explanation
Indices: 77804250--77804291 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
77804240 AGGTTTATAG
77804250 TAAAACTTTT
1 TAAAA-TTTT
77804260 T-AAATTTT
1 TAAAATTTT
77804268 TAATAATTTT
1 TAA-AATTTT
*
77804278 TAAAATCTT
1 TAAAATTTT
77804287 TAAAA
1 TAAAA
77804292 AAAATCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 5 0.17
9 14 0.48
10 10 0.34
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (9 bp):
TAAAATTTT
Done.