Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 189 of 427
Found at i:52165358 original size:31 final size:31
Alignment explanation
Indices: 52165317--52165389 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
52165307 AATCAAAATG
* *
52165317 AGAATTAGAATCAAAATCAGGTGACAGAATC
1 AGAATCAGAATCAAAATCAGGTAACAGAATC
**
52165348 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAAAATCAGGTAACAGAATC
*
52165379 AAAATCAGAAT
1 AGAATCAGAAT
52165390 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAAAATCAGGTAACAGAATC
Found at i:52165773 original size:22 final size:21
Alignment explanation
Indices: 52165745--52165809 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
52165735 GCAAATACGT
52165745 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
* *
52165767 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AACCATAAT-CAGG
*
52165789 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAA-CCATAATCAG
52165810 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:52166267 original size:27 final size:27
Alignment explanation
Indices: 52166241--52166714 Score: 583
Period size: 27 Copynumber: 17.9 Consensus size: 27
52166231 CAAAATGGTA
* *
52166241 ATTT-TACCCCACAAGGGTATCTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
52166267 AATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
52166294 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * *
52166321 AATTCTATCCTAC-AGGGATATTTCAGT
1 ATTTCTACCCTACAAGGG-TATTTCGGT
* *
52166348 AATTCTACCCTACAAGGGTATTTCGAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
52166375 ATTTCTACCCTACAAGGGTATTTCGAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * *
52166402 ATTTCTATCCTACAGGGGTATTTCGAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
52166429 ATTTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * *
52166456 ATTTCTACCTTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* **
52166483 AATTCTA-CCT-------TATTTTAGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
52166502 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
52166529 ATTTCTACCCTACAAGGGTATTTCGAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
52166556 AATTCTACCCTACAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
52166583 AATTCTACCCTAC-AGGGTTATTTCGGT
1 ATTTCTACCCTACAAGGG-TATTTCGGT
* *
52166610 ATTTCTACCCTACAAGGGTATTTCTGA
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
52166637 ATTTCAACCCTACAAGGGTATTTTGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
52166664 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
52166691 AATTCTACCCTATAAGGGTATTTC
1 ATTTCTACCCTACAAGGGTATTTC
52166715 AATAATTTTG
Statistics
Matches: 394, Mismatches: 41, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.04
20 3 0.01
26 13 0.03
27 356 0.90
28 8 0.02
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (27 bp):
ATTTCTACCCTACAAGGGTATTTCGGT
Found at i:52166496 original size:19 final size:19
Alignment explanation
Indices: 52166474--52166510 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
52166464 CTTACAGGGG
52166474 TATTTCAGTAATTCTACCT
1 TATTTCAGTAATTCTACCT
* *
52166493 TATTTTAGTATTTCTACC
1 TATTTCAGTAATTCTACC
52166511 CTACAAGGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.19, G:0.05, T:0.51
Consensus pattern (19 bp):
TATTTCAGTAATTCTACCT
Found at i:52166789 original size:81 final size:81
Alignment explanation
Indices: 52166678--52166946 Score: 212
Period size: 81 Copynumber: 3.3 Consensus size: 81
52166668 CTACCCTACA
* * ** ** *
52166678 AGGGTATTTCGGTAATTCTACCCTAT-AAGGGTATTTCAATAATTTTGTAAATCGAGGGTAAAAC
1 AGGGTATTTCGATAATTTTA-CAAATCAAGGGTATTTCAATAATTTTACAAATCGAAGGTAAAAC
* ** *
52166742 GGTAATTCTGTAAATTG
65 AGTAATTCTACAAACTG
* * * * ***
52166759 GGGGTACTTT-GATAATTTTACAAGTCAAGGGTATTTTAGTAATTTTACAAATCGAAGGTATTTC
1 AGGGTA-TTTCGATAATTTTACAAATCAAGGGTATTTCAATAATTTTACAAATCGAAGGTAAAAC
*
52166823 AGTAATTTTACAAACTG
65 AGTAATTCTACAAACTG
* ***
52166840 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTAC-AATC-AACGGTATTTC
1 AGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCAATAATTTTACAAATCGAA-GGTAAAAC
*
52166903 -GATAATTTTACAAA-TCG
65 AG-TAATTCTACAAACT-G
52166920 AGGGTATTTC-AGTAATTTTAC-AATCAA
1 AGGGTATTTCGA-TAATTTTACAAATCAA
52166947 CAGTATTTTG
Statistics
Matches: 156, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
79 10 0.06
80 49 0.31
81 94 0.60
82 3 0.02
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (81 bp):
AGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCAATAATTTTACAAATCGAAGGTAAAACA
GTAATTCTACAAACTG
Found at i:52166790 original size:27 final size:25
Alignment explanation
Indices: 52166760--52166946 Score: 169
Period size: 27 Copynumber: 7.0 Consensus size: 25
52166750 TGTAAATTGG
52166760 GGGTACTTTGATAATTTTACAAGTCAA
1 GGGTA-TTTGATAATTTTACAA-TCAA
*
52166787 GGGTATTTTAGTAATTTTACAAATCGAA
1 GGGTATTTGA-TAATTTTAC-AATC-AA
* * *
52166815 -GGTATTTCAGTAATTTTACAAACTGA
1 GGGTATTTGA-TAATTTTACAATC-AA
*
52166841 GGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTT-GATAATTTTAC-AATCAA
*
52166868 GGGTATTTCAATAATTTTACAATCAA
1 GGGTATTT-GATAATTTTACAATCAA
* *
52166894 CGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTT-GATAATTTTAC-AATCAA
*
52166921 GGGTATTTCAGTAATTTTACAATCAA
1 GGGTATTTGA-TAATTTTACAATCAA
52166947 CAGTATTTTG
Statistics
Matches: 137, Mismatches: 15, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
26 37 0.27
27 92 0.67
28 8 0.06
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (25 bp):
GGGTATTTGATAATTTTACAATCAA
Found at i:52166829 original size:54 final size:54
Alignment explanation
Indices: 52166771--52167193 Score: 364
Period size: 54 Copynumber: 8.1 Consensus size: 54
52166761 GGTACTTTGA
* * *
52166771 TAATTTTACAAGTCAAGGGTATTTTAGTAATTTTACAAATCGAAGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCAG
* *
52166825 TAATTTTACAAA-CTGAGGGTA-TTTCGATAATTTTACAAATCGAGGGTATTTCAA
1 TAATTTTACAAATC-GAGGGTATTTTAG-TAATTTTACAAATCGAGGGTATTTCAG
* * *
52166879 TAATTTTAC-AATCAACGGTA-TTTCGATAATTTTACAAATCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTTAG-TAATTTTACAAATCGAGGGTATTTCAG
* ** * **
52166932 TAATTTTAC-AATCAACAGTATTTTGGTAA--TT-----T-GA---TATTTGGG
1 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCAG
* * * * * *
52166974 TAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCAG
* *
52167028 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTTCAAA-CTGAAGGTATTTC-G
1 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATC-GAGGGTATTTCAG
* * * *
52167081 CTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAC-AATCGATGCTATTTCGG
1 -TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCAG
* * * * * * *
52167135 TAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAACT-GGGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCAG
52167188 TAATTT
1 TAATTT
52167194 GGTAAACTAA
Statistics
Matches: 304, Mismatches: 44, Indels: 43
0.78 0.11 0.11
Matches are distributed among these distances:
42 14 0.05
43 14 0.05
45 4 0.01
46 1 0.00
50 1 0.00
51 4 0.01
53 124 0.41
54 142 0.47
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.39
Consensus pattern (54 bp):
TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCAG
Found at i:52166921 original size:53 final size:53
Alignment explanation
Indices: 52166770--52166963 Score: 255
Period size: 53 Copynumber: 3.6 Consensus size: 53
52166760 GGGTACTTTG
* * *
52166770 ATAATTTTACAAGTCAAGGGTATTT-TAGTAATTTTACAAATCGAAGGTATTTCA
1 ATAATTTTACAA-TCAACGGTATTTCGA-TAATTTTACAAATCGAGGGTATTTCA
* * * *
52166824 GTAATTTTACAAACTGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCA
1 ATAATTTTACAATC-AACGGTATTTCGATAATTTTACAAATCGAGGGTATTTCA
52166878 ATAATTTTACAATCAACGGTATTTCGATAATTTTACAAATCGAGGGTATTTCA
1 ATAATTTTACAATCAACGGTATTTCGATAATTTTACAAATCGAGGGTATTTCA
* * * *
52166931 GTAATTTTACAATCAACAGTATTTTGGTAATTT
1 ATAATTTTACAATCAACGGTATTTCGATAATTT
52166964 GATATTTGGG
Statistics
Matches: 125, Mismatches: 13, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
53 67 0.54
54 57 0.46
55 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (53 bp):
ATAATTTTACAATCAACGGTATTTCGATAATTTTACAAATCGAGGGTATTTCA
Found at i:52167003 original size:27 final size:27
Alignment explanation
Indices: 52166966--52167193 Score: 214
Period size: 27 Copynumber: 8.5 Consensus size: 27
52166956 GGTAATTTGA
* * * *
52166966 TATTTGGGTAATTTTATAAACCGGGGG
1 TATTTCGGTAATTTTACAAATCGAGGG
*
52166993 TACTTT-GGTAATTTTACAAGTCGAGGG
1 TA-TTTCGGTAATTTTACAAATCGAGGG
*
52167020 TATTTCAGTAATTTTACAAATCGAGGG
1 TATTTCGGTAATTTTACAAATCGAGGG
** * *
52167047 TATTTTAGTAATTTTTCAAA-CTGAAGG
1 TATTTCGGTAATTTTACAAATC-GAGGG
*
52167074 TATTTCGCTAATTTTACAAATCGAGGG
1 TATTTCGGTAATTTTACAAATCGAGGG
* * *
52167101 TATTTCAGTAATTTTAC-AATCGATGC
1 TATTTCGGTAATTTTACAAATCGAGGG
* * *
52167127 TATTTCGGTAATTTTATAAACCGGGGG
1 TATTTCGGTAATTTTACAAATCGAGGG
* *
52167154 TACTTT-GGTAATTTTACAACT-GGGGG
1 TA-TTTCGGTAATTTTACAAATCGAGGG
*
52167180 TATTTCAGTAATTT
1 TATTTCGGTAATTT
52167194 GGTAAACTAA
Statistics
Matches: 166, Mismatches: 28, Indels: 15
0.79 0.13 0.07
Matches are distributed among these distances:
25 3 0.02
26 40 0.24
27 116 0.70
28 7 0.04
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TATTTCGGTAATTTTACAAATCGAGGG
Found at i:52167167 original size:230 final size:230
Alignment explanation
Indices: 52166758--52167172 Score: 661
Period size: 230 Copynumber: 1.8 Consensus size: 230
52166748 TCTGTAAATT
*
52166758 GGGGGTACTTTGATAATTTTACAAGTCAAGGGTATTTTAGTAATTTTACAAATCGAAGGTATTTC
1 GGGGGTACTTTGATAATTTTACAAGTCAAGGGTATTTCAGTAATTTTACAAATCGAAGGTATTTC
*
52166823 AGTAATTTTACAAACTGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTAC
66 AGTAATTTTACAAACTGAAGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTAC
* *
52166888 AATCAACGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCAACAGTAT
131 AATCAACGCTATTTCGATAATTTTACAAACCGAGGGTATTTCAGTAATTTTACAATCAACAGTAT
52166953 TTTGGTAATTTGATATTTGGGTAATTTTATAAACC
196 TTTGGTAATTTGATATTTGGGTAATTTTATAAACC
* * * *
52166988 GGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTT
1 GGGGGTACTTTGATAATTTTACAAGTCAAGGGTATTTCAGTAATTTTACAAATCGAAGGTATTTC
* * *
52167053 AGTAATTTTTCAAACTGAAGGTATTTCGCTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAC
66 AGTAATTTTACAAACTGAAGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTAC
* * * * * *
52167118 AATCGATGCTATTTCGGTAATTTTATAAACCGGGGGTACTTT-GGTAATTTTACAA
131 AATCAACGCTATTTCGATAATTTTACAAACCGAGGGTA-TTTCAGTAATTTTACAA
52167173 CTGGGGGTAT
Statistics
Matches: 167, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
230 164 0.98
231 3 0.02
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.39
Consensus pattern (230 bp):
GGGGGTACTTTGATAATTTTACAAGTCAAGGGTATTTCAGTAATTTTACAAATCGAAGGTATTTC
AGTAATTTTACAAACTGAAGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTAC
AATCAACGCTATTTCGATAATTTTACAAACCGAGGGTATTTCAGTAATTTTACAATCAACAGTAT
TTTGGTAATTTGATATTTGGGTAATTTTATAAACC
Found at i:52170415 original size:40 final size:40
Alignment explanation
Indices: 52170360--52170540 Score: 258
Period size: 40 Copynumber: 4.5 Consensus size: 40
52170350 TATTCGGATG
* *
52170360 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
52170400 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
52170440 ATATCCGGGCTAAGTCCCGAAGGTATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
52170480 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
52170520 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
52170541 ATACTTGGGT
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 13 0.10
40 111 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:52173355 original size:25 final size:24
Alignment explanation
Indices: 52173327--52173376 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
52173317 AATTTAGCCA
*
52173327 TTTTTTAATTTTTACTTTAATATTT
1 TTTTTTAATTTTTAATTTAAT-TTT
**
52173352 TTTTTTTGTTTTTAATTTAATTTT
1 TTTTTTAATTTTTAATTTAATTTT
52173376 T
1 T
52173377 ACATTCTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTTTAATTTTTAATTTAATTTT
Found at i:52173389 original size:13 final size:12
Alignment explanation
Indices: 52173330--52173390 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
52173320 TTAGCCATTT
*
52173330 TTTAATTTTTAC
1 TTTAATTTTTAA
**
52173342 TTTAATATTTTTT
1 TTTAAT-TTTTAA
**
52173355 TTTTGTTTTTAA
1 TTTAATTTTTAA
52173367 TTTAATTTTTACA
1 TTTAATTTTTA-A
52173380 TTCTAATTTTT
1 TT-TAATTTTT
52173391 TTCATTTGTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
12 19 0.50
13 11 0.29
14 8 0.21
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (12 bp):
TTTAATTTTTAA
Found at i:52183562 original size:27 final size:27
Alignment explanation
Indices: 52183222--52183561 Score: 432
Period size: 27 Copynumber: 12.6 Consensus size: 27
52183212 AAAGTACTCC
52183222 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
52183249 -TAGGTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** * *
52183276 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
52183303 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
52183330 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
52183357 CGATTTACAGAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
52183384 CAATTTACATAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* *
52183411 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
52183438 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
52183465 CAATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
52183492 CGATTTATAGAATTACTGTTTCACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
52183519 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
52183546 TGATTTACAAAATTAC
1 CGATTTACAGAATTAC
52183562 TAAAATACCC
Statistics
Matches: 274, Mismatches: 35, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.01
27 270 0.99
28 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:52183570 original size:27 final size:27
Alignment explanation
Indices: 52183514--52183574 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
52183504 TTACTGTTTC
* ****
52183514 ACCCTTGATTTACAGAATTACTGTTTT
1 ACCCTTGATTTACAAAATTACTAAAAT
52183541 ACCCTTGATTTACAAAATTACTAAAAT
1 ACCCTTGATTTACAAAATTACTAAAAT
52183568 ACCCTTG
1 ACCCTTG
52183575 GTTTGTGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (27 bp):
ACCCTTGATTTACAAAATTACTAAAAT
Found at i:52184901 original size:9 final size:9
Alignment explanation
Indices: 52184889--52184945 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
52184879 TTTGATAAAC
52184889 ATGATATGT
1 ATGATATGT
*
52184898 ATGATATGCAC
1 ATGATATG--T
*
52184909 ATGACATGT
1 ATGATATGT
*
52184918 ATGATATGCAC
1 ATGATATG--T
52184929 ATGATATGT
1 ATGATATGT
52184938 ATGATATG
1 ATGATATG
52184946 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:52184912 original size:20 final size:20
Alignment explanation
Indices: 52184887--52184949 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
52184877 ATTTTGATAA
52184887 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
52184907 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
52184927 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
52184947 ACA
1 ACA
52184950 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:52185060 original size:24 final size:24
Alignment explanation
Indices: 52185004--52185193 Score: 260
Period size: 24 Copynumber: 8.0 Consensus size: 24
52184994 GAGGAAGTGA
52185004 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
52185027 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
52185051 AAAAGGGCTTATGCCCCAATTATC
1 AAAAGGGCTTATGCCCCAGTTATC
52185075 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
52185099 AAAAGGGCTTACGCCCTAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
52185122 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
52185146 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
52185170 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
52185194 ATGATAAAGC
Statistics
Matches: 149, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
23 42 0.28
24 96 0.64
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:52185127 original size:71 final size:71
Alignment explanation
Indices: 52185003--52185193 Score: 260
Period size: 71 Copynumber: 2.7 Consensus size: 71
52184993 GGAGGAAGTG
* *
52185003 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
52185068 AATTAT
66 AATTAT
* * *
52185074 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCTAGTTAT-TAAAGGGCTTATGCCC
1 AAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCC
*
52185138 CAGTTAT
65 CAATTAT
* *
52185145 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTACGCC-CCAGTTAT
52185194 ATGATAAAGC
Statistics
Matches: 106, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
71 75 0.71
72 31 0.29
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (71 bp):
AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
AATTAT
Found at i:52185150 original size:47 final size:47
Alignment explanation
Indices: 52185003--52185194 Score: 269
Period size: 47 Copynumber: 4.0 Consensus size: 47
52184993 GGAGGAAGTG
52185003 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* * *
52185050 CAAAAGGGCTTATGCCCCAATTATCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* * *
52185098 CAAAAGGGCTTACGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
52185145 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATT-AAAG-GGCTTATGCC-CCAGTTAT
52185194 A
1 A
52185195 TGATAAAGCA
Statistics
Matches: 129, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
47 65 0.50
48 52 0.40
49 12 0.09
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:52185422 original size:31 final size:31
Alignment explanation
Indices: 52185387--52185450 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
52185377 CGTTTACCGT
*
52185387 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
52185418 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
52185449 AA
1 AA
52185451 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:52186663 original size:25 final size:27
Alignment explanation
Indices: 52186635--52186686 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
52186625 TTAAAGAGAG
*
52186635 ACCACATAAAA-GA-AATATGGTAAAT
1 ACCACATAAAATAACAATATGGTAAAT
*
52186660 ACCATATAAAATAACAATATGGTAAAT
1 ACCACATAAAATAACAATATGGTAAAT
52186687 TTCTTAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 10 0.43
26 1 0.04
27 12 0.52
ACGTcount: A:0.56, C:0.12, G:0.10, T:0.23
Consensus pattern (27 bp):
ACCACATAAAATAACAATATGGTAAAT
Found at i:52188768 original size:16 final size:15
Alignment explanation
Indices: 52188747--52188802 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
52188737 TTGTTCTCCC
52188747 TTTATTTTTTATTTAT
1 TTTATTTTTTA-TTAT
*
52188763 TTTATTATTTATTAT
1 TTTATTTTTTATTAT
* *
52188778 TCTAATTTTT-TTAGT
1 TTTATTTTTTATTA-T
*
52188793 ATTATTTTTT
1 TTTATTTTTT
52188803 TTAAATATAC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
14 3 0.09
15 19 0.59
16 10 0.31
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTATTTTTTATTAT
Found at i:52194975 original size:48 final size:48
Alignment explanation
Indices: 52194917--52195143 Score: 252
Period size: 48 Copynumber: 4.8 Consensus size: 48
52194907 CACATGGTAG
* * * * *
52194917 GATGCCAATGCCATATCCCGGATATGGTCTTACATGAGATCGTAGATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTGTAGATT
* *
52194965 GATGCGAATGCCATGTCCCAGACATGGTCTTACATGGGTTTGTAGATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTGTAGATT
* *
52195013 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATTGTAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTGTAGATT
** ** *
52195061 GATGCCAAT---A-G-CCCAG-CTATGGTCTTACATGAAATTACATATT
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATTGTAGATT
*
52195104 GATGCCAAAGCCATGTCCC-GAACATGGTCTTACATGGGAT
1 GATGCCAATGCCATGTCCCAG-ACATGGTCTTACATGGGAT
52195144 CGCACATAAC
Statistics
Matches: 150, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
42 1 0.01
43 31 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 2 0.01
48 112 0.75
49 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTGTAGATT
Found at i:52200427 original size:24 final size:25
Alignment explanation
Indices: 52200394--52200458 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 25
52200384 TCTGTTTTCA
* *
52200394 TTTTATTTGTTTTATTTA-TGTTAT
1 TTTTAGTTGTTTTATTTATTGTTAG
* ** *
52200418 TTTTGGTTGTACT-TTTATTTTTAG
1 TTTTAGTTGTTTTATTTATTGTTAG
52200442 TTTTAGTTGTTTTATTT
1 TTTTAGTTGTTTTATTT
52200459 TGATTTGTGA
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
23 4 0.13
24 23 0.77
25 3 0.10
ACGTcount: A:0.14, C:0.02, G:0.12, T:0.72
Consensus pattern (25 bp):
TTTTAGTTGTTTTATTTATTGTTAG
Found at i:52201067 original size:20 final size:21
Alignment explanation
Indices: 52201024--52201069 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
52201014 ACTGTTTTGT
52201024 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
52201044 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
52201063 TATGGGC
1 TATGGGC
52201070 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:52206315 original size:16 final size:16
Alignment explanation
Indices: 52206294--52206327 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
52206284 CAACATATGT
52206294 TAAAACAAACTATATA
1 TAAAACAAACTATATA
52206310 TAAAACAAACTATATA
1 TAAAACAAACTATATA
52206326 TA
1 TA
52206328 TATACAGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAACAAACTATATA
Found at i:52215573 original size:43 final size:42
Alignment explanation
Indices: 52215525--52215639 Score: 107
Period size: 41 Copynumber: 2.8 Consensus size: 42
52215515 TCGTACAATG
*
52215525 GTCCCAGATGTGGTCTTACACGCTAACTCATATCGATGCC-ACT
1 GTCCCAGAAGTGGTCTTACACG-TAACTCATATCGATGCCGA-T
* * *
52215568 GTCCCAAACAG-GGTCTTACACG-AA-TCAAAAACGATGCCGAT
1 GTCCCAGA-AGTGGTCTTACACGTAACTC-ATATCGATGCCGAT
52215609 GTCCCAGACA-TGGTCTTACACGTAAC-CATAT
1 GTCCCAGA-AGTGGTCTTACACGTAACTCATAT
52215640 ATATCGATGC
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
40 2 0.03
41 34 0.58
42 4 0.07
43 18 0.31
44 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (42 bp):
GTCCCAGAAGTGGTCTTACACGTAACTCATATCGATGCCGAT
Found at i:52224293 original size:20 final size:20
Alignment explanation
Indices: 52224268--52224308 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
52224258 TTACTTCTCG
52224268 TAACCAAAACTCGCACTTAC
1 TAACCAAAACTCGCACTTAC
52224288 TAACCAAAACTCGCACTTAC
1 TAACCAAAACTCGCACTTAC
52224308 T
1 T
52224309 GAACTTGGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.34, G:0.05, T:0.22
Consensus pattern (20 bp):
TAACCAAAACTCGCACTTAC
Found at i:52231134 original size:39 final size:40
Alignment explanation
Indices: 52231038--52231226 Score: 215
Period size: 40 Copynumber: 4.8 Consensus size: 40
52231028 GGAGTGTCAT
* * * *
52231038 AGTACAAATAGGGGCACGTATGTGCATTCAGGGGTA-TCAA
1 AGTACAAACAAGGGCACTTATGTGCATTCAGGGGTACT-GA
* * *
52231078 AGTACAAA-TAGGAGCACTTAGGTGCATTCA-AGGTACTGA
1 AGTACAAACAAGG-GCACTTATGTGCATTCAGGGGTACTGA
52231117 AGTACAAACAAGGGCACTTATGTGCATTCAGGGGTA-TCGA
1 AGTACAAACAAGGGCACTTATGTGCATTCAGGGGTACT-GA
* **
52231157 AGTACAAACAAGGGCACTTATGTGCATTTAGGGGTACAAA
1 AGTACAAACAAGGGCACTTATGTGCATTCAGGGGTACTGA
* *
52231197 ATTACAAACAAGGGCACTTATGTGTATTCA
1 AGTACAAACAAGGGCACTTATGTGCATTCA
52231227 TATATATACG
Statistics
Matches: 128, Mismatches: 15, Indels: 12
0.83 0.10 0.08
Matches are distributed among these distances:
39 32 0.25
40 96 0.75
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (40 bp):
AGTACAAACAAGGGCACTTATGTGCATTCAGGGGTACTGA
Found at i:52231139 original size:79 final size:80
Alignment explanation
Indices: 52231038--52231226 Score: 247
Period size: 79 Copynumber: 2.4 Consensus size: 80
52231028 GGAGTGTCAT
* * * *
52231038 AGTACAAATAGGGGCACGTATGTGCATTCAGGGGTATCAAAGTACAAA-TAGGAGCACTTAGGTG
1 AGTACAAACAAGGGCACTTATGTGCATTCAGGGGTATCAAAGTACAAACAAGG-GCACTTAGGTG
**
52231102 CATTCA-AGGTACTGA
65 CATTCAGAGGTACAAA
* *
52231117 AGTACAAACAAGGGCACTTATGTGCATTCAGGGGTATCGAAGTACAAACAAGGGCACTTATGTGC
1 AGTACAAACAAGGGCACTTATGTGCATTCAGGGGTATCAAAGTACAAACAAGGGCACTTAGGTGC
* *
52231182 ATTTAGGGGTACAAA
66 ATTCAGAGGTACAAA
* *
52231197 ATTACAAACAAGGGCACTTATGTGTATTCA
1 AGTACAAACAAGGGCACTTATGTGCATTCA
52231227 TATATATACG
Statistics
Matches: 96, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
79 59 0.61
80 37 0.39
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (80 bp):
AGTACAAACAAGGGCACTTATGTGCATTCAGGGGTATCAAAGTACAAACAAGGGCACTTAGGTGC
ATTCAGAGGTACAAA
Found at i:52236317 original size:34 final size:34
Alignment explanation
Indices: 52236257--52236355 Score: 139
Period size: 34 Copynumber: 2.9 Consensus size: 34
52236247 ATATTTTGCC
*
52236257 AAAATGAAA-AAAAATGATAA-AGCTTAAAACTAA
1 AAAATGAAACAAAAATAATAAGA-CTTAAAACTAA
* *
52236290 AAAATAAAACAAAAATAATAAGACTTAAAACTAC
1 AAAATGAAACAAAAATAATAAGACTTAAAACTAA
*
52236324 AAAATGAAACAAAAATTATAAGACTTAAAACT
1 AAAATGAAACAAAAATAATAAGACTTAAAACT
52236356 CTAACACCAA
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
33 8 0.14
34 50 0.85
35 1 0.02
ACGTcount: A:0.66, C:0.09, G:0.06, T:0.19
Consensus pattern (34 bp):
AAAATGAAACAAAAATAATAAGACTTAAAACTAA
Found at i:52236404 original size:36 final size:34
Alignment explanation
Indices: 52236257--52236405 Score: 108
Period size: 34 Copynumber: 4.4 Consensus size: 34
52236247 ATATTTTGCC
* *
52236257 AAAATGAAAAAAAA-TGATAA-AGCTTAAAACTAA
1 AAAACGAAAAAAAATTAATAAGA-CTTAAAACTAA
* * *
52236290 AAAA-TAAAACAAAAATAATAAGACTTAAAACTAC
1 AAAACGAAAA-AAAATTAATAAGACTTAAAACTAA
* **
52236324 AAAATGAAACAAAAATT-ATAAGACTTAAAACTCT
1 AAAACGAAA-AAAAATTAATAAGACTTAAAACTAA
* * * *
52236358 AACACCAAAAACACTGCTAATAAGACTTAAAACTAA
1 AAAACGAAAAAAAAT--TAATAAGACTTAAAACTAA
*
52236394 AAAAGGAAAAAA
1 AAAACGAAAAAA
52236406 TTATAAGACC
Statistics
Matches: 90, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
32 4 0.04
33 12 0.13
34 40 0.44
35 10 0.11
36 24 0.27
ACGTcount: A:0.64, C:0.12, G:0.07, T:0.17
Consensus pattern (34 bp):
AAAACGAAAAAAAATTAATAAGACTTAAAACTAA
Found at i:52238662 original size:48 final size:48
Alignment explanation
Indices: 52238589--52238950 Score: 258
Period size: 48 Copynumber: 7.5 Consensus size: 48
52238579 CATGTGCGCT
* ** *
52238589 AGTGTAAGACCATGTCTGGGGCATGGCATCAGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCAGCCATGATATGAGAGCC
* * * ** * *
52238637 ATTGTAAGACCATGTTTGGAACATGGCCTCGGTGATGTTGTGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCAGCCATGATATGAGAGCC
* * * *
52238685 AGTGTAAGACCATGTTTGGAACATGGCATC-GACGATGTTGTGAGAACC
1 AGTGTAAGACCATGTTTGGAACATGGCATCAG-CCATGATATGAGAGCC
* * * *
52238733 AATGTAAGACCATGTCTCGG-ACATGGCATCAG-CATTGATATGTGCA-CT
1 AGTGTAAGACCATGT-TTGGAACATGGCATCAGCCA-TGATATGAG-AGCC
* * * *
52238781 AGTGTAAGACCATGTCTGGGACATGGCATC-GACCA-CATTATGAGAGTC
1 AGTGTAAGACCATGTTTGGAACATGGCATCAG-CCATGA-TATGAGAGCC
* * * * * * *
52238829 AATGTAAGACCATGTCTAGG-ACATGGCAT-TGGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGT-TTGGAACATGGCATCAGCCA-TGATATGAGAGCC
* * *
52238877 AGTGTAAGACCATGTTTGGGACATGGCATCAGTCTCA--ACATGTGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCAG-C-CATGATATGAGAGCC
*
52238925 AGTGTAAAACCATGTTTGGAACATGG
1 AGTGTAAGACCATGTTTGGAACATGG
52238951 TATCGACAAT
Statistics
Matches: 248, Mismatches: 48, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
47 12 0.05
48 223 0.90
49 11 0.04
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCAGCCATGATATGAGAGCC
Found at i:52238747 original size:25 final size:25
Alignment explanation
Indices: 52238671--52238747 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
52238661 GGCCTCGGTG
* *
52238671 ATGTTGTGAGAGCCAGTGTAAGACC
1 ATGTTGTGAGAACCAATGTAAGACC
* * *
52238696 ATGTT-TG-GAA-C-ATGGCATCGACG
1 ATGTTGTGAGAACCAAT-GTA-AGACC
52238719 ATGTTGTGAGAACCAATGTAAGACC
1 ATGTTGTGAGAACCAATGTAAGACC
52238744 ATGT
1 ATGT
52238748 CTCGGACATG
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
21 1 0.03
22 3 0.08
23 10 0.26
24 4 0.11
25 15 0.39
26 3 0.08
27 2 0.05
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (25 bp):
ATGTTGTGAGAACCAATGTAAGACC
Found at i:52238853 original size:144 final size:144
Alignment explanation
Indices: 52238591--52238957 Score: 341
Period size: 144 Copynumber: 2.5 Consensus size: 144
52238581 TGTGCGCTAG
* * * *
52238591 TGTAAGACCATGTCTGGGGCATGGCATCAGCCACGATATGAGAGCCATTGTAAGACCATGTTTGG
1 TGTAAGACCATGTCTCGGACATGGCATCAGCCACGATATGAGAGCCAGTGTAAGACCATGTCTGG
* *** ** * * *
52238656 AACATGGCCTCGGTGATGTTGTGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACGAT
66 AACATGGCATCGACCACATTATGAGAGCCAATGTAAGACCATGTTAGGAACATGGCATCGACGAT
52238721 GTTGTGAGAACCAA
131 GTTGTGAGAACCAA
* * *
52238735 TGTAAGACCATGTCTCGGACATGGCATCAG-CATTGATATGTGCA-CTAGTGTAAGACCATGTCT
1 TGTAAGACCATGTCTCGGACATGGCATCAGCCA-CGATATGAG-AGCCAGTGTAAGACCATGTCT
* * * *
52238798 GGGACATGGCATCGACCACATTATGAGAGTCAATGTAAGACCATGTCTAGG-ACATGGCATTGGC
64 GGAACATGGCATCGACCACATTATGAGAGCCAATGTAAGACCATGT-TAGGAACATGGCATCGAC
* * *
52238862 -A--TTGAGACGAGAGCTAG
128 GATGTTGTGA-GA-A-CCAA
* * * * * * * * *
52238879 TGTAAGACCATGTTTGGGACATGGCATCAGTCTCAACATGTGAGCCAGTGTAAAACCATGTTTGG
1 TGTAAGACCATGTCTCGGACATGGCATCAGCCACGATATGAGAGCCAGTGTAAGACCATGTCTGG
*
52238944 AACATGGTATCGAC
66 AACATGGCATCGAC
52238958 AATTCACCCT
Statistics
Matches: 181, Mismatches: 34, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
141 5 0.03
142 2 0.01
143 5 0.03
144 164 0.91
145 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (144 bp):
TGTAAGACCATGTCTCGGACATGGCATCAGCCACGATATGAGAGCCAGTGTAAGACCATGTCTGG
AACATGGCATCGACCACATTATGAGAGCCAATGTAAGACCATGTTAGGAACATGGCATCGACGAT
GTTGTGAGAACCAA
Found at i:52238949 original size:96 final size:94
Alignment explanation
Indices: 52238586--52238955 Score: 329
Period size: 96 Copynumber: 3.9 Consensus size: 94
52238576 TGACATGTGC
* *
52238586 GCTAGTGTAAGACCATGTCTGGGGCATGGCATC-AGCCACGATATGAGAGCCATTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCA--ATATGAGAGCCAATGTAAGACCAT
* * *
52238650 GT-TTGGAACATGGCCTCGGTGA-TGTTG-TGAGA
63 GTCTTGG-ACATGGCATCGG-CATTG-AGATGAGA
* * * * * * *
52238682 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGACGATGTTGTGAGAACCAATGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCA--ATATGAGAGCCAATGTAAGACCATG
* * * *
52238747 TCTCGGACATGGCATCAGCATTGATATGTGCA
64 TCTTGGACATGGCATCGGCATTGAGATGAG-A
*
52238779 -CTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGTCAATGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCA-A-TATGAGAGCCAATGTAAGACCATG
* * *
52238843 TCTAGGACATGGCATTGGCATTGAGACGAGA
64 TCTTGGACATGGCATCGGCATTGAGATGAGA
* * * * * *
52238874 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGTCTCAACATGTGAGCCAGTGTAAAACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GAC-CAATATGAGAGCCAATGTAAGACCATG
*
52238939 T-TTGGAACATGGTATCG
64 TCTTGG-ACATGGCATCG
52238956 ACAATTCACC
Statistics
Matches: 222, Mismatches: 42, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
95 5 0.02
96 207 0.93
97 8 0.04
98 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (94 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCAATATGAGAGCCAATGTAAGACCATGTC
TTGGACATGGCATCGGCATTGAGATGAGA
Found at i:52242151 original size:35 final size:35
Alignment explanation
Indices: 52242100--52242167 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
52242090 GTAACAACCA
*
52242100 GCACAAATGCCTTCGGGACTTAACTCGGTTATAAT
1 GCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
*
52242135 GCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 GCACAAATGCCTTCGGGACTTAACCCGGTTATA
52242168 TTTTTTTTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (35 bp):
GCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:52244328 original size:43 final size:43
Alignment explanation
Indices: 52244215--52244335 Score: 126
Period size: 43 Copynumber: 2.8 Consensus size: 43
52244205 ACACGTATCG
*
52244215 ATGCCACTGTCCCACACAGGGTCTTATGCGAAGT--T-GATTAACA
1 ATGCCACTGTCCCACACAGGGTCTTA--C-AAGTAATCGAATAACA
* *
52244258 ATGCCGA-TGTCCCACACATGGTTTTACAAGTAATCGTAAT-ACA
1 ATGCC-ACTGTCCCACACAGGGTCTTACAAGTAATCG-AATAACA
*
52244301 ATGCCACTGTCCCACACAGGGTCTTACATGTAATC
1 ATGCCACTGTCCCACACAGGGTCTTACAAGTAATC
52244336 ACATCTCAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
40 4 0.06
41 1 0.02
42 2 0.03
43 56 0.85
44 3 0.05
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCACTGTCCCACACAGGGTCTTACAAGTAATCGAATAACA
Found at i:52247697 original size:40 final size:41
Alignment explanation
Indices: 52247636--52247762 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 41
52247626 CGGAATACAA
52247636 CCGGATA-TAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGTAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
52247676 CCAGATAG-AACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGTAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* *
52247716 CCGGAT-GTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATAGTAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
52247756 CCGGATA
1 CCGGATA
52247763 TAATTTCCAG
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
39 4 0.05
40 71 0.95
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (41 bp):
CCGGATAGTAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:52249993 original size:46 final size:47
Alignment explanation
Indices: 52249939--52250069 Score: 164
Period size: 46 Copynumber: 2.8 Consensus size: 47
52249929 ATATTTGGGC
52249939 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGAGCG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGAG-G
* * *
52249986 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--ACGAGG
52250031 AATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52250070 GCGGGTTACA
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
43 4 0.06
45 3 0.04
46 32 0.45
47 29 0.41
48 2 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (47 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGAGG
Found at i:52252469 original size:20 final size:21
Alignment explanation
Indices: 52252431--52252470 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
52252421 GTTAAGATAA
*
52252431 CACACGGGCTTGTTGCCCTTC
1 CACACAGGCTTGTTGCCCTTC
52252452 CACACAGGCTTG-TGCCCTT
1 CACACAGGCTTGTTGCCCTT
52252471 GTCAGCTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.12, C:0.38, G:0.23, T:0.28
Consensus pattern (21 bp):
CACACAGGCTTGTTGCCCTTC
Found at i:52257545 original size:155 final size:155
Alignment explanation
Indices: 52257263--52257573 Score: 613
Period size: 155 Copynumber: 2.0 Consensus size: 155
52257253 ACCAACAGAG
52257263 GTTGAGATTCTATTAGACATGACTTATGGCGAAGAACCGGTTAAGATCTTAGCCCGAGAGGTCAA
1 GTTGAGATTCTATTAGACATGACTTATGGCGAAGAACCGGTTAAGATCTTAGCCCGAGAGGTCAA
52257328 GCAATTGAGAAATAAAAGTATAGCATTCGTGAAAGTACTATGGCATCGACATGGGGTTGAAGGGG
66 GCAATTGAGAAATAAAAGTATAGCATTCGTGAAAGTACTATGGCATCGACATGGGGTTGAAGGGG
*
52257393 CCACATGGGAACCTGAGGATTCTAT
131 CCACATAGGAACCTGAGGATTCTAT
52257418 GTTGAGATTCTATTAGACATGACTTATGGCGAAGAACCGGTTAAGATCTTAGCCCGAGAGGTCAA
1 GTTGAGATTCTATTAGACATGACTTATGGCGAAGAACCGGTTAAGATCTTAGCCCGAGAGGTCAA
52257483 GCAATTGAGAAATAAAAGTATAGCATTCGTGAAAGTACTATGGCATCGACATGGGGTTGAAGGGG
66 GCAATTGAGAAATAAAAGTATAGCATTCGTGAAAGTACTATGGCATCGACATGGGGTTGAAGGGG
52257548 CCACATAGGAACCTGAGGATTCTAT
131 CCACATAGGAACCTGAGGATTCTAT
52257573 G
1 G
52257574 AGAGATCAAT
Statistics
Matches: 155, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
155 155 1.00
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.24
Consensus pattern (155 bp):
GTTGAGATTCTATTAGACATGACTTATGGCGAAGAACCGGTTAAGATCTTAGCCCGAGAGGTCAA
GCAATTGAGAAATAAAAGTATAGCATTCGTGAAAGTACTATGGCATCGACATGGGGTTGAAGGGG
CCACATAGGAACCTGAGGATTCTAT
Found at i:52258903 original size:48 final size:48
Alignment explanation
Indices: 52258844--52259114 Score: 244
Period size: 48 Copynumber: 5.6 Consensus size: 48
52258834 TATGTGTGCT
52258844 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGATATGAGAGCC
* * * * * * *
52258892 AGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGAGCC
*
52258940 AGTGTAAGACCATGTCTGGGACATGGCATCGACCA-C-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCG-GCATCGA-TATGAGAGCC
* * ** * * * * *
52258988 AATGTAATACCATGTCTAAGACATGGCATCGACATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGAGCC
* * ** * *
52259036 AGTGTAAGACCATGTCTGGGACATAGCATCGGCCTTAACATGTA-AGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATG-AGAGCC
* * *
52259084 AGTGTAAAACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
52259115 ACAATTCACC
Statistics
Matches: 179, Mismatches: 38, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
47 3 0.02
48 171 0.96
49 5 0.03
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGAGCC
Found at i:52259000 original size:96 final size:95
Alignment explanation
Indices: 52258831--52259117 Score: 346
Period size: 96 Copynumber: 3.0 Consensus size: 95
52258821 GACATTTGGG
* *
52258831 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGATATGAGAGCCAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATATGAGAGCCAGTG
* * *
52258896 TAAGACCATGTTTGGAACATGGCATTGGCAT
65 TAAAACCATGTTTGGAACATGGCATCGACAT
* * *
52258927 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAATG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACA-TATGAGAGCCAGTG
* * *
52258992 TAATACCATGTCT-AAGACATGGCATCGACAT
65 TAAAACCATGTTTGGA-ACATGGCATCGACAT
* * * * * *
52259023 TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTTA-ACATGTA-AGCTAG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC--ACATATG-AGAGCCAG
52259086 TGTAAAACCATGTTTGGAACATGGCATCGACA
63 TGTAAAACCATGTTTGGAACATGGCATCGACA
52259118 ATTCACCCTC
Statistics
Matches: 164, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
95 2 0.01
96 158 0.96
97 3 0.02
98 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (95 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATATGAGAGCCAGTGT
AAAACCATGTTTGGAACATGGCATCGACAT
Found at i:52260105 original size:22 final size:22
Alignment explanation
Indices: 52260077--52260123 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
52260067 GCCTTGGCCG
52260077 TGTGCCCTTAAGGGGTTGCTAA
1 TGTGCCCTTAAGGGGTTGCTAA
52260099 TGTGCCCTTAAGGGGTTGCTAA
1 TGTGCCCTTAAGGGGTTGCTAA
52260121 TGT
1 TGT
52260124 TAGAAATAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.34
Consensus pattern (22 bp):
TGTGCCCTTAAGGGGTTGCTAA
Found at i:52264707 original size:21 final size:21
Alignment explanation
Indices: 52264683--52264725 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
52264673 TAATAAAAAA
*
52264683 TAAATTTACATTAA-ATAATTT
1 TAAATTTAAATTAATAT-ATTT
52264704 TAAATTTAAATTAATATATTT
1 TAAATTTAAATTAATATATTT
52264725 T
1 T
52264726 CATTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TAAATTTAAATTAATATATTT
Found at i:52265342 original size:83 final size:83
Alignment explanation
Indices: 52265254--52265422 Score: 329
Period size: 83 Copynumber: 2.0 Consensus size: 83
52265244 CTCGATTTTC
*
52265254 AATGGTACTGGAAAAAGGCGATTTCAGAATCCTATTTTCGTAAACCAAGTCAATAATTATTAAAT
1 AATGGTACCGGAAAAAGGCGATTTCAGAATCCTATTTTCGTAAACCAAGTCAATAATTATTAAAT
52265319 ATTAATATTTACAAGAAT
66 ATTAATATTTACAAGAAT
52265337 AATGGTACCGGAAAAAGGCGATTTCAGAATCCTATTTTCGTAAACCAAGTCAATAATTATTAAAT
1 AATGGTACCGGAAAAAGGCGATTTCAGAATCCTATTTTCGTAAACCAAGTCAATAATTATTAAAT
52265402 ATTAATATTTACAAGAAT
66 ATTAATATTTACAAGAAT
52265420 AAT
1 AAT
52265423 ATAAAAATAT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 85 1.00
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (83 bp):
AATGGTACCGGAAAAAGGCGATTTCAGAATCCTATTTTCGTAAACCAAGTCAATAATTATTAAAT
ATTAATATTTACAAGAAT
Found at i:52268220 original size:43 final size:43
Alignment explanation
Indices: 52268173--52268295 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 43
52268163 TCACATATCA
* *
52268173 ATGCCAATGTCCCAGACATGGCCTTACATGAAATCAT-ATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATAAT-ACG
* * * * *
52268216 ATGCCAATGTCCCAGATATAGTCTTACACGTAATCGTAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATAATACG
52268259 ATGCCAATGTCCCAGACATGGTCTTACAC-ATAATCAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGA-AATCAT
52268296 GTGTCATTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 65 0.97
44 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATAATACG
Found at i:52275517 original size:40 final size:40
Alignment explanation
Indices: 52275389--52275519 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
52275379 TATGCTGGAA
* * * *
52275389 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
52275429 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
52275469 ATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
52275509 ATTATATCCGG
1 ATTATATCCGG
52275520 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:52280426 original size:49 final size:49
Alignment explanation
Indices: 52280370--52280633 Score: 447
Period size: 49 Copynumber: 5.4 Consensus size: 49
52280360 TATTAAAATT
*
52280370 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
52280419 TGTGAAAGTGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
52280468 TGTGAAAGTGTGTATATATGTGATAAGGCCTAACGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
52280517 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
52280566 AGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
52280615 TGTGAAAGTGTATATATAT
1 TGTGAAAGTGTATATATAT
52280634 ATGTGGTAAA
Statistics
Matches: 201, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 201 1.00
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (49 bp):
TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:52280439 original size:27 final size:27
Alignment explanation
Indices: 52280409--52280491 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 27
52280399 CTAATGGCCG
52280409 ATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
* * ***
52280436 ATGTGAT-AAGGCT-TAA-TG-G--CCG
1 ATGTGATGAATG-TGAAAGTGTGTATAT
52280458 ATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
52280485 ATGTGAT
1 ATGTGAT
52280492 AAGGCCTAAC
Statistics
Matches: 39, Mismatches: 10, Indels: 14
0.62 0.16 0.22
Matches are distributed among these distances:
22 8 0.21
23 5 0.13
24 3 0.08
25 3 0.08
26 5 0.13
27 15 0.38
ACGTcount: A:0.31, C:0.04, G:0.30, T:0.35
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTGTATAT
Found at i:52282683 original size:40 final size:40
Alignment explanation
Indices: 52282635--52282955 Score: 561
Period size: 40 Copynumber: 8.0 Consensus size: 40
52282625 GAGAGTGATA
*
52282635 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
*
52282675 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
52282715 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
52282755 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
52282795 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
52282835 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
*
52282875 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
* * * * * *
52282915 TATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGACG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
52282955 T
1 T
52282956 GTATTCGGGC
Statistics
Matches: 272, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 272 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
Found at i:52286687 original size:49 final size:49
Alignment explanation
Indices: 52286631--52286892 Score: 429
Period size: 49 Copynumber: 5.4 Consensus size: 49
52286621 TATTAAAATT
*
52286631 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
52286680 TGTGAAAGTG--TGTATATGTGATAAGGCTTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
52286727 TGTGAAAGTGTGTATATATGTGATAAGGCCTAACGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
52286776 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
52286825 AGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
52286874 TGTGAAAGTGTATATATAT
1 TGTGAAAGTGTATATATAT
52286893 ATGTGGTAAA
Statistics
Matches: 198, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 46 0.23
49 152 0.77
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (49 bp):
TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:52289413 original size:43 final size:42
Alignment explanation
Indices: 52289378--52289501 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 42
52289368 CTTACATGTT
52289378 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACACGAA
1 ATCACATAT-GATGCCAATGTCCCAGACATGGTCTTACACGAA
** * *
52289421 ATCTTATAATGGTGCCAATGTCCCAGATATGGTCTTACAC-ACA
1 ATCACAT-ATGATGCCAATGTCCCAGACATGGTCTTACACGA-A
*
52289464 ATCGCAATATGATGCCAATGTCCCCA-ACATGGTCTTAC
1 ATCAC-ATATGATGCCAATGT-CCCAGACATGGTCTTAC
52289502 TCATAATCAC
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
42 1 0.01
43 60 0.87
44 8 0.12
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (42 bp):
ATCACATATGATGCCAATGTCCCAGACATGGTCTTACACGAA
Found at i:52293955 original size:40 final size:40
Alignment explanation
Indices: 52293871--52294055 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
52293861 TCGAATGATG
* *
52293871 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
52293910 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
52293951 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
52293990 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
52294029 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
52294056 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:52294007 original size:79 final size:81
Alignment explanation
Indices: 52293871--52294053 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
52293861 TCGAATGATG
* *
52293871 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
52293935 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
52293950 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
52294012 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
52294030 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
52294054 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:52294077 original size:79 final size:78
Alignment explanation
Indices: 52293872--52294088 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
52293862 CGAATGATGT
* *
52293872 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
52293935 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
52293952 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
52294015 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
52294031 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
52294089 TACGTGATTC
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:52302022 original size:40 final size:40
Alignment explanation
Indices: 52301938--52302122 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
52301928 TCGAATGATG
* *
52301938 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
52301977 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
52302018 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
52302057 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
52302096 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
52302123 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:52302074 original size:79 final size:81
Alignment explanation
Indices: 52301938--52302120 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
52301928 TCGAATGATG
* *
52301938 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
52302002 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
52302017 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
52302079 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
52302097 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
52302121 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:52302144 original size:79 final size:79
Alignment explanation
Indices: 52301939--52302154 Score: 239
Period size: 79 Copynumber: 2.7 Consensus size: 79
52301929 CGAATGATGT
* *
52301939 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCATT
*
52302002 TGTGCGAGTTACTAATT
63 TGTGCGAGTTACTAATA
* *
52302019 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGAT-CCGAAGGCATT
52302081 TGTGCGAGTTACT-ATAA
63 TGTGCGAGTTACTAAT-A
* ** *
52302098 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA-ATTCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGG
52302155 TACGTGATTC
Statistics
Matches: 116, Mismatches: 11, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
78 9 0.08
79 64 0.55
80 43 0.37
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:52302929 original size:16 final size:17
Alignment explanation
Indices: 52302897--52302930 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
52302887 AAATCACTAA
*
52302897 AAATAGTAGAATGAATT
1 AAATAGTAGAATAAATT
52302914 AAATAGT-GAATAAATT
1 AAATAGTAGAATAAATT
52302930 A
1 A
52302931 TGTAATCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (17 bp):
AAATAGTAGAATAAATT
Found at i:52311355 original size:11 final size:11
Alignment explanation
Indices: 52311339--52311363 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
52311329 TGTGTCTCTT
52311339 ACATGGCCAAG
1 ACATGGCCAAG
52311350 ACATGGCCAAG
1 ACATGGCCAAG
52311361 ACA
1 ACA
52311364 CTCAATATTC
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:0.28, G:0.24, T:0.08
Consensus pattern (11 bp):
ACATGGCCAAG
Found at i:52318081 original size:47 final size:47
Alignment explanation
Indices: 52318018--52318122 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 47
52318008 CCCTTCGGAA
* * *
52318018 CTTATAACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
52318065 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
52318112 CTTATCACATA
1 CTTATCACATA
52318123 ATTAATACTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:52322954 original size:42 final size:42
Alignment explanation
Indices: 52322846--52322969 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 42
52322836 CGTACTGTAC
* * * *
52322846 CAATGCCATATCCCAAATATGGTTTTACATGTAATCTCGTAT
1 CAATGCCATATCCCAGATATGGTCTTACATGTAATCTCATAG
* * * * *
52322888 CGATGCGAATAGCCCAGCTATGGTCCTACATG-AAGTCTCATAG
1 CAATGC-CATATCCCAGATATGGTCTTACATGTAA-TCTCATAG
**
52322931 CAATGCCATATCCCAGATATGGTCTTACACATAATCTCA
1 CAATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
52322970 GTAACCCTAC
Statistics
Matches: 63, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
42 31 0.49
43 32 0.51
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACATGTAATCTCATAG
Found at i:52323824 original size:12 final size:13
Alignment explanation
Indices: 52323807--52323835 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
52323797 AGATGGACAA
52323807 AATTTGGC-TTTT
1 AATTTGGCTTTTT
52323819 AATTTGGCTTTTT
1 AATTTGGCTTTTT
52323832 AATT
1 AATT
52323836 CATTTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (13 bp):
AATTTGGCTTTTT
Found at i:52327378 original size:24 final size:23
Alignment explanation
Indices: 52327344--52327441 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 23
52327334 AAGGCTGTCA
*
52327344 GGAGAAGATTTAGGAACTGATAAG
1 GGAG-AGATTTAGGAGCTGATAAG
*
52327368 GGAGAGTATTTAGGAGTTGATAAG
1 GGAGAG-ATTTAGGAGCTGATAAG
*
52327392 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGA-GATTTAGGAGCTGATAAG
52327416 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAG-AGATTTAGGAGCTGAT-AAG
52327441 G
1 G
52327442 AGCAGGAGTT
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
23 2 0.03
24 58 0.89
25 5 0.08
ACGTcount: A:0.37, C:0.04, G:0.37, T:0.22
Consensus pattern (23 bp):
GGAGAGATTTAGGAGCTGATAAG
Found at i:52327420 original size:48 final size:49
Alignment explanation
Indices: 52327344--52327441 Score: 137
Period size: 48 Copynumber: 2.0 Consensus size: 49
52327334 AAGGCTGTCA
* *
52327344 GGAGAAGATTTAGGAACTGATAAGGGAG-AGTATTTAGGAGTTGAT-AAG
1 GGAGAAGATTTAGGAACTGATAAAGGAGAAG-ATTTAGGAGCTGATCAAG
* *
52327392 GGAGAGGATTTAGGAGCTGATAAAGGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAACTGATAAAGGAGAAGATTTAGGAGCTGATCAAG
52327441 G
1 G
52327442 AGCAGGAGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
48 38 0.86
49 6 0.14
ACGTcount: A:0.37, C:0.04, G:0.37, T:0.22
Consensus pattern (49 bp):
GGAGAAGATTTAGGAACTGATAAAGGAGAAGATTTAGGAGCTGATCAAG
Found at i:52333421 original size:40 final size:39
Alignment explanation
Indices: 52333376--52333502 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
52333366 CGGAACATAA
52333376 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
52333416 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
52333456 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
52333496 CCGGATA
1 CCGGATA
52333503 AAATTTCCAG
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:52333520 original size:40 final size:40
Alignment explanation
Indices: 52333392--52333542 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
52333382 ATAACCATGT
* * *
52333392 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTC-CA
** ** * *
52333432 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
* *
52333472 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
* *
52333512 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATA
52333543 TCATTCAATT
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 2 0.02
40 84 0.94
41 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
Found at i:52333526 original size:80 final size:80
Alignment explanation
Indices: 52333392--52333541 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
52333382 ATAACCATGT
* *
52333392 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
52333456 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * *
52333472 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
52333535 CCCGGAT
64 CCCGGAT
52333542 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:52338349 original size:42 final size:42
Alignment explanation
Indices: 52338230--52338351 Score: 122
Period size: 43 Copynumber: 2.9 Consensus size: 42
52338220 TACCGTACCA
* ** * *
52338230 ATGCCATATTCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACATAGTCTCATATCG
* * * *
52338272 ATGCGAATAGCCTA-ACTATGGTCTTACATGA-AGTCTCATATCG
1 ATGC-CATATCCCAGA-TATGGTCTTACA-CATAGTCTCATATCG
52338315 ATGCCATATCCCAGATATGGTCTTACACATAGTCTCA
1 ATGCCATATCCCAGATATGGTCTTACACATAGTCTCA
52338352 GTAACCCTAA
Statistics
Matches: 63, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
41 1 0.02
42 30 0.48
43 32 0.51
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACATAGTCTCATATCG
Found at i:52339805 original size:55 final size:56
Alignment explanation
Indices: 52339740--52339854 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 56
52339730 AGCATGGCTG
* *
52339740 CCAGATACAGA-AAATGTGAC-AGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAAG-GCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
52339796 CCAGA-ACAGATATATGTGGCAAGGCCACCAGAACAGGTAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAAGGCCACCAGAACAGATAATTTGTGGCATAGCCA
52339851 CCAG
1 CCAG
52339855 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
54 1 0.02
55 28 0.55
56 20 0.39
57 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAAGGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:52339850 original size:28 final size:28
Alignment explanation
Indices: 52339765--52339854 Score: 105
Period size: 28 Copynumber: 3.2 Consensus size: 28
52339755 GTGACAGAGT
*
52339765 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
*
52339794 CACCAGAACAGAT-ATATGTGGCA-AGGC
1 CACCAGAACAGATAATTTGTGGCATA-GC
*
52339821 CACCAGAACAGGTAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
52339849 CACCAG
1 CACCAG
52339855 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
27 22 0.42
28 23 0.43
29 8 0.15
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:52340007 original size:28 final size:28
Alignment explanation
Indices: 52339960--52340052 Score: 161
Period size: 28 Copynumber: 3.3 Consensus size: 28
52339950 AAATTAACCC
*
52339960 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
52339988 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
52340016 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
52340044 TAGGGGTAT
1 TAGGGGTAT
52340053 TCTAGTACAT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
27 1 0.02
28 62 0.98
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:52340321 original size:16 final size:15
Alignment explanation
Indices: 52340300--52340331 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
52340290 CCAAAATACC
52340300 GGCTTTTCGGCGTTTT
1 GGCTTTTCGGC-TTTT
52340316 GGCTTTTCGGCTTTT
1 GGCTTTTCGGCTTTT
52340331 G
1 G
52340332 CCGATCTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.00, C:0.19, G:0.31, T:0.50
Consensus pattern (15 bp):
GGCTTTTCGGCTTTT
Found at i:52341138 original size:12 final size:13
Alignment explanation
Indices: 52341119--52341151 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
52341109 GGGTTCAGCT
52341119 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
52341132 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
52341144 ATGGAGAA
1 ATGGAGAA
52341152 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:52342937 original size:40 final size:40
Alignment explanation
Indices: 52342900--52343125 Score: 282
Period size: 40 Copynumber: 5.7 Consensus size: 40
52342890 GCTACTCGTT
*
52342900 CAAATGCCTTCAGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCA
*
52342940 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
*
52342980 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* *
52343020 CGAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* * * * *
52343060 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
52343101 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
52343126 CATCATTCGA
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 156 0.91
41 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:52357562 original size:39 final size:39
Alignment explanation
Indices: 52357508--52357621 Score: 192
Period size: 39 Copynumber: 2.9 Consensus size: 39
52357498 GAATGTTCGA
52357508 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
*
52357547 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
52357586 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
52357622 GGTTACCATA
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 54 0.76
40 17 0.24
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
Found at i:52361245 original size:29 final size:29
Alignment explanation
Indices: 52361174--52361354 Score: 190
Period size: 29 Copynumber: 6.3 Consensus size: 29
52361164 ACCCCTACAT
* * *
52361174 ACATGCATATGGCCCACTAGGCCCAA-TC
1 ACATTCATATGGCCCATTCGGCCCAATTC
* *
52361202 TCATTTATATGGCCCATTCGGCCCAATTC
1 ACATTCATATGGCCCATTCGGCCCAATTC
* *
52361231 ACGTTCATATGGCCCATTAGGCCCAATTC
1 ACATTCATATGGCCCATTCGGCCCAATTC
*
52361260 ACATTCATATGGCCCATCCGGCCCAATTC
1 ACATTCATATGGCCCATTCGGCCCAATTC
52361289 ACATTCATATGGCCCATTAC-GCCCAA-TC
1 ACATTCATATGGCCCATT-CGGCCCAATTC
* * * * * * *
52361317 TCATTTATATGACTCATCCGGACCAAATC
1 ACATTCATATGGCCCATTCGGCCCAATTC
52361346 ACATT-ATAT
1 ACATTCATAT
52361355 TTATGCTTAC
Statistics
Matches: 129, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 1 0.01
28 45 0.35
29 82 0.64
30 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATTCGGCCCAATTC
Found at i:52361287 original size:58 final size:57
Alignment explanation
Indices: 52361174--52361354 Score: 247
Period size: 57 Copynumber: 3.2 Consensus size: 57
52361164 ACCCCTACAT
* * *
52361174 ACATGCATATGGCCCACTAGGCCCAATCTCATTTATATGGCCCATTCGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATCTCATTTATATGGCCCATCCGGCCCAATTC
* * *
52361231 ACGTTCATATGGCCCATTAGGCCCAATTCACATTCATATGGCCCATCCGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAA-TCTCATTTATATGGCCCATCCGGCCCAATTC
* * * * *
52361289 ACATTCATATGGCCCATTACGCCCAATCTCATTTATATGACTCATCCGGACCAAATC
1 ACATTCATATGGCCCATTAGGCCCAATCTCATTTATATGGCCCATCCGGCCCAATTC
52361346 ACATT-ATAT
1 ACATTCATAT
52361355 TTATGCTTAC
Statistics
Matches: 109, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
56 4 0.04
57 53 0.49
58 52 0.48
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (57 bp):
ACATTCATATGGCCCATTAGGCCCAATCTCATTTATATGGCCCATCCGGCCCAATTC
Found at i:52361467 original size:19 final size:19
Alignment explanation
Indices: 52361421--52361458 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
52361411 ATGGGCTCAA
*
52361421 TAGCCC-TTCGGGCCCATT
1 TAGCCCATTCTGGCCCATT
52361439 TAGCCCATTCTGGCCCATT
1 TAGCCCATTCTGGCCCATT
52361458 T
1 T
52361459 GGCCTATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.13, C:0.37, G:0.18, T:0.32
Consensus pattern (19 bp):
TAGCCCATTCTGGCCCATT
Found at i:52363877 original size:200 final size:199
Alignment explanation
Indices: 52363527--52363919 Score: 680
Period size: 200 Copynumber: 2.0 Consensus size: 199
52363517 AGAAATAGCC
*
52363527 CACAATTCCAATTATCTCACACATTTACAACCTATTTATAAACTTTACAAAATGGTCCCTTCAGG
1 CACAATTCCAATTATCTCACACATTTACAACCCATTTATAAACTTTACAAAATGGTCCCTTCAGG
*
52363592 TGTTTTCATGAAAACTACTTCACAAAAATTGTTGATTTAACCACCATAACTCATTTTCTTCCATA
66 TGTTTTCATGAAAACTACTTCACAAAAATTGTTCATTTAACCACCATAACTCATTTTCTTCCATA
*
52363657 ATATTTCAGTAAACATTTCAAAAGATTTCATGACAAAACC-CTAGACTTTCAATATTTTTGCAAT
131 ATATTTCAGCAAACATTTCAAAAGATTTCATGACAAAACCTC-AGACTTTCAATATTTTTGCAAT
52363721 TATCT
195 TATCT
*
52363726 CACAATTCCAATTATCTCACACATTTACAACCCATTTTATAAACTTTACAAAATGGTCCCTTGAG
1 CACAATTCCAATTATCTCACACATTTACAACCCA-TTTATAAACTTTACAAAATGGTCCCTTCAG
52363791 GTGTTTTCATGAAAACTACTTCACAAAAATTGTTCATTTAACCACCATAACTCATTTTCTTCCAT
65 GTGTTTTCATGAAAACTACTTCACAAAAATTGTTCATTTAACCACCATAACTCATTTTCTTCCAT
* * ** *
52363856 AATATTTTAGCAAAGATTTCAAAATCTTTCATGACAAAACCTCAGACTTTCAATGTTTTTGCAA
130 AATATTTCAGCAAACATTTCAAAAGATTTCATGACAAAACCTCAGACTTTCAATATTTTTGCAA
52363920 AATAGTCCTT
Statistics
Matches: 183, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
199 33 0.18
200 149 0.81
201 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (199 bp):
CACAATTCCAATTATCTCACACATTTACAACCCATTTATAAACTTTACAAAATGGTCCCTTCAGG
TGTTTTCATGAAAACTACTTCACAAAAATTGTTCATTTAACCACCATAACTCATTTTCTTCCATA
ATATTTCAGCAAACATTTCAAAAGATTTCATGACAAAACCTCAGACTTTCAATATTTTTGCAATT
ATCT
Found at i:52365011 original size:33 final size:33
Alignment explanation
Indices: 52364952--52365014 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
52364942 AGACCATGGT
* *
52364952 TGGGTTATGGCATTTTAGTGAAAAGACCATAAC
1 TGGGTTATGGCATTTGACTGAAAAGACCATAAC
*
52364985 TGGGTTATGGCATTGTGACTG-TAAGACCAT
1 TGGGTTATGGCATT-TGACTGAAAAGACCAT
52365015 GGTTGGACCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 22 0.85
34 4 0.15
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.32
Consensus pattern (33 bp):
TGGGTTATGGCATTTGACTGAAAAGACCATAAC
Found at i:52369302 original size:42 final size:42
Alignment explanation
Indices: 52369212--52369361 Score: 140
Period size: 42 Copynumber: 3.5 Consensus size: 42
52369202 TAAGATTAAG
* * * * *
52369212 TGTAAGACCATATCCAGGATAAGGCATCAGTATGATACTTCA
1 TGTAAGACCATATCTAGGATATGGCATCAATATGAGATTTCA
* * * * *
52369254 TATAAGACTATATCTGGGATATGGCATCAATACGAGATTTCG
1 TGTAAGACCATATCTAGGATATGGCATCAATATGAGATTTCA
* * * **
52369296 TGTAAGACCATAGT-TGGGCTATTGGCATCGATATGAGATCCCA
1 TGTAAGACCATA-TCTAGGATA-TGGCATCAATATGAGATTTCA
52369339 TGTAAGACCATATCTAGGATATG
1 TGTAAGACCATATCTAGGATATG
52369362 TCATTGGTAT
Statistics
Matches: 85, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
42 51 0.60
43 34 0.40
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGATATGGCATCAATATGAGATTTCA
Found at i:52372581 original size:27 final size:27
Alignment explanation
Indices: 52372509--52372609 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
52372499 CTTTACATCA
* * * * * *
52372509 TACTTTGAGTGGATTGTCATTTTGACA
1 TACTCTGAATGGATTGCCTTTTTGGCG
*
52372536 TACTCTGAATGAATTGCCTTTTTGGCG
1 TACTCTGAATGGATTGCCTTTTTGGCG
* *
52372563 TACTCTGAATGGATTGCCTTTATGGTG
1 TACTCTGAATGGATTGCCTTTTTGGCG
* *
52372590 TACTATGAATGGATTACCTT
1 TACTCTGAATGGATTGCCTT
52372610 ATGGCAAATT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.42
Consensus pattern (27 bp):
TACTCTGAATGGATTGCCTTTTTGGCG
Found at i:52372667 original size:18 final size:18
Alignment explanation
Indices: 52372644--52372680 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
52372634 TTGTGGTATT
52372644 TTGTCATCTAGAAAACAA
1 TTGTCATCTAGAAAACAA
52372662 TTGTCATCTAGAAAACAA
1 TTGTCATCTAGAAAACAA
52372680 T
1 T
52372681 AGTATTTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (18 bp):
TTGTCATCTAGAAAACAA
Found at i:52374076 original size:17 final size:17
Alignment explanation
Indices: 52374031--52374076 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
52374021 TTGGCGGATA
*
52374031 AGTATCACCTGGCAAAC
1 AGTATCACCTGGAAAAC
*
52374048 AGTTTCACCTGGAAAAC
1 AGTATCACCTGGAAAAC
*
52374065 AGTATCATCTGG
1 AGTATCACCTGG
52374077 GGAATAGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (17 bp):
AGTATCACCTGGAAAAC
Found at i:52381509 original size:50 final size:49
Alignment explanation
Indices: 52381395--52381570 Score: 226
Period size: 50 Copynumber: 3.5 Consensus size: 49
52381385 CTAGTACGCA
* *
52381395 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
52381444 TAGTAGCCTGCACTTAGTACTAGACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * *
52381494 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
52381545 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
52381571 TGCGACCTCA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 30 0.28
50 44 0.40
51 35 0.32
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:52381578 original size:101 final size:99
Alignment explanation
Indices: 52381395--52381578 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 99
52381385 CTAGTACGCA
* *
52381395 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* *
52381460 GTACTAGACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * * *
52381494 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
*
52381559 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
52381579 CACAATAGAC
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 29 0.39
100 3 0.04
101 42 0.57
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:52388079 original size:43 final size:41
Alignment explanation
Indices: 52387984--52388101 Score: 137
Period size: 43 Copynumber: 2.8 Consensus size: 41
52387974 ATGTTTTATG
* * *
52387984 TGTAAGACCATGTCTGGAACATCGGCATCGTATTTGATTTCG
1 TGTAAGACCATGTCTGGGACAT-GGCATCGTATTTGATTACA
* *
52388026 TGTAAAACCATGTCTGGGACAGTGGCATCGATATTTGGTTACA
1 TGTAAGACCATGTCTGGGACA-TGGCATCG-TATTTGATTACA
* *
52388069 TGTAAGACCATGTCTAGGACATTGGCATTGTAT
1 TGTAAGACCATGTCTGGGACA-TGGCATCGTAT
52388102 GAGCTTTTCG
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 29 0.45
43 36 0.55
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATGGCATCGTATTTGATTACA
Found at i:52389282 original size:20 final size:20
Alignment explanation
Indices: 52389234--52389275 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
52389224 GTAACTGAAA
52389234 AGGTACCAAAGTTACCGTAT
1 AGGTACCAAAGTTACCGTAT
*
52389254 AGGTACCAAAGTTACTGTAT
1 AGGTACCAAAGTTACCGTAT
52389274 AG
1 AG
52389276 AGTCCAACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (20 bp):
AGGTACCAAAGTTACCGTAT
Found at i:52397732 original size:47 final size:47
Alignment explanation
Indices: 52397663--52397757 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
52397653 TTAGCTGAGC
52397663 AATCCTAACCAGACGATGACTAATGGAAACATAATTGAAATGTGCAT
1 AATCCTAACCAGACGATGACTAATGGAAACATAATTGAAATGTGCAT
52397710 AATCCTAACCAGACGATGACTAATGGAAACATAATTGAAATGTGCAT
1 AATCCTAACCAGACGATGACTAATGGAAACATAATTGAAATGTGCAT
52397757 A
1 A
52397758 CTCAATTTAA
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:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (47 bp):
AATCCTAACCAGACGATGACTAATGGAAACATAATTGAAATGTGCAT
Found at i:52402048 original size:30 final size:30
Alignment explanation
Indices: 52401983--52402049 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
52401973 TGTAAAAGAG
*
52401983 GTAAAAGTTAATTGATTTTGATTTAAAATA
1 GTAAAGGTTAATTGATTTTGATTTAAAATA
52402013 GTAAAGGTTAATTGATTTTGATTTAAAATA
1 GTAAAGGTTAATTGATTTTGATTTAAAATA
52402043 GTAAAGG
1 GTAAAGG
52402050 GACCAAAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (30 bp):
GTAAAGGTTAATTGATTTTGATTTAAAATA
Found at i:52405444 original size:28 final size:28
Alignment explanation
Indices: 52405404--52405502 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
52405394 GTAATAAGCC
*
52405404 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
52405432 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* ** * * *
52405460 TGCACACTTAGTGCTATACCATTTGAACC
1 CGCACACTTAGTGCT-TAATAATCGAACT
52405489 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52405503 CAATTTGTGA
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.62
29 18 0.31
30 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:52407537 original size:21 final size:21
Alignment explanation
Indices: 52407507--52407554 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
52407497 TGGCTAAGAA
* *
52407507 ACACGGCCGTATGATTGAGGC
1 ACACGTCCGTATGAATGAGGC
*
52407528 ACACGTCCGTGTGAATGAGGC
1 ACACGTCCGTATGAATGAGGC
52407549 ACACGT
1 ACACGT
52407555 GCATGTGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.19
Consensus pattern (21 bp):
ACACGTCCGTATGAATGAGGC
Found at i:52407561 original size:21 final size:21
Alignment explanation
Indices: 52407522--52407563 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
52407512 GCCGTATGAT
*
52407522 TGAGGCACACGTCCGTGTGAA
1 TGAGGCACACGTCCATGTGAA
*
52407543 TGAGGCACACGTGCATGTGAA
1 TGAGGCACACGTCCATGTGAA
52407564 AAATGATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.33, T:0.19
Consensus pattern (21 bp):
TGAGGCACACGTCCATGTGAA
Found at i:52408471 original size:10 final size:9
Alignment explanation
Indices: 52408454--52408489 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
52408444 ATGTTTGAGT
52408454 AAAAAGAAA
1 AAAAAGAAA
52408463 AATAAAGAAA
1 AA-AAAGAAA
*
52408473 AAAAATAAA
1 AAAAAGAAA
52408482 AAAAAGAA
1 AAAAAGAA
52408490 GAATGTGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.86, C:0.00, G:0.08, T:0.06
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:52408478 original size:13 final size:12
Alignment explanation
Indices: 52408453--52408486 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
52408443 GATGTTTGAG
*
52408453 TAAAAAGAAAAA
1 TAAAAAAAAAAA
52408465 TAAAGAAAAAAAA
1 TAAA-AAAAAAAA
52408478 TAAAAAAAA
1 TAAAAAAAA
52408487 GAAGAATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (12 bp):
TAAAAAAAAAAA
Found at i:52410055 original size:16 final size:16
Alignment explanation
Indices: 52410034--52410065 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52410024 AGTGACCTTA
52410034 GTAAACCTCATTTCAT
1 GTAAACCTCATTTCAT
52410050 GTAAACCTCATTTCAT
1 GTAAACCTCATTTCAT
52410066 CGATTTTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (16 bp):
GTAAACCTCATTTCAT
Found at i:52418481 original size:19 final size:19
Alignment explanation
Indices: 52418457--52418494 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
52418447 CATCAACAAG
52418457 TTAGTCACATAACAATGCA
1 TTAGTCACATAACAATGCA
52418476 TTAGTCACATAACAATGCA
1 TTAGTCACATAACAATGCA
52418495 CCATGTAACT
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:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (19 bp):
TTAGTCACATAACAATGCA
Found at i:52427704 original size:49 final size:49
Alignment explanation
Indices: 52427396--52427702 Score: 478
Period size: 49 Copynumber: 6.3 Consensus size: 49
52427386 CCCTTCGGAA
* * *
52427396 CTTATCACAT-T-TATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
52427443 CCTATCAC--ATATATACACTTTCACATTCATCACGTTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52427490 CTTATCACATATATATGCACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52427539 CTTATCACATATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52427588 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52427637 CTTATCACATATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52427686 CTTATCACATATATATA
1 CTTATCACATATATATA
52427703 TATCTCATAC
Statistics
Matches: 240, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 48 0.20
49 191 0.80
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.35
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52431044 original size:40 final size:40
Alignment explanation
Indices: 52431000--52431191 Score: 278
Period size: 40 Copynumber: 4.7 Consensus size: 40
52430990 CCAGCATGAT
* * *
52431000 TGCTCTTCGGGACCTAGCCCGGATATAACACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
52431040 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
52431080 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCATGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCA--C--GAA
*
52431124 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
52431164 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
52431192 GTCGAGACCT
Statistics
Matches: 138, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
39 4 0.03
40 96 0.70
44 38 0.28
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:52431158 original size:84 final size:80
Alignment explanation
Indices: 52430987--52431191 Score: 304
Period size: 84 Copynumber: 2.5 Consensus size: 80
52430977 CGAATACACG
* * * * *
52430987 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACTAGCACGAATGCTCTTCGGAA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
52431052 CTTAGCCCGGATACA
66 CTTAGCCCGGATACA
*
52431067 TCACTAGCATGAATGCTCTTTGGGACTTAGCCCGGATACATCACTAGCATGCATGAATGCTCTTC
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCA--C--GAATGCTCTTC
*
52431132 GGGACTTAGCCCGGATACA
62 GGAACTTAGCCCGGATACA
52431151 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATC
52431192 GTCGAGACCT
Statistics
Matches: 113, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
80 43 0.38
82 1 0.01
83 4 0.04
84 65 0.58
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
CTTAGCCCGGATACA
Found at i:52433691 original size:49 final size:48
Alignment explanation
Indices: 52433547--52433821 Score: 371
Period size: 49 Copynumber: 5.7 Consensus size: 48
52433537 CCCTTCGGAA
* * * *
52433547 CTTATCACATTTATA-C-CATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATCACTTTCACATTCATCACATCGGCCATTAGGC
* * * * *
52433593 CCTATCACATATATA-CACATTCACATTCATTCACGTTGGCCATTCGGC
1 CTTATCACATATATATCACTTTCACATTCA-TCACATCGGCCATTAGGC
*
52433641 CTTATCACATATATATGCACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATAT-CACTTTCACATTCATCACATCGGCCATTAGGC
52433690 CTTATCACATATATAAT-AC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT-ATCACTTTCACATTCATCACATCGGCCATTAGGC
*
52433737 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATA-TCACTTTCACATTCATCACATCGGCCATTAGGC
52433786 CTTATCACATATATATACACTTTCACATTCATCACA
1 CTTATCACATATATAT-CACTTTCACATTCATCACA
52433822 NCGACTGCTC
Statistics
Matches: 208, Mismatches: 12, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
46 15 0.07
47 53 0.25
48 35 0.17
49 91 0.44
50 14 0.07
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (48 bp):
CTTATCACATATATATCACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52433772 original size:96 final size:96
Alignment explanation
Indices: 52433547--52433821 Score: 387
Period size: 96 Copynumber: 2.9 Consensus size: 96
52433537 CCCTTCGGAA
* * * *
52433547 CTTATCACATTTATACCA--TTCACATTCATCACATTGGCCATTCGGCCCTATCACATATAT-AC
1 CTTATCACATATATACCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAAC
* * *
52433609 ACATTCACATTCATTCACGTTGGCCATTCGGC
66 ACATTCACATTCA-TCACATCGGCCATTAGGC
* *
52433641 CTTATCACATATATATGCACTTTCACATTCTTCACATCGGCCATTAGGCCTTATCACATATATAA
1 CTTATCACATATATA-CCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAA
*
52433706 TAC-TTCACATTCATCACATCGGCCATTAGGC
65 CACATTCACATTCATCACATCGGCCATTAGGC
52433737 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATAC-CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-
*
52433802 ACACTTTCACATTCATCACA
64 ACACATTCACATTCATCACA
52433822 NCGACTGCTC
Statistics
Matches: 161, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
94 14 0.09
95 2 0.01
96 76 0.47
97 51 0.32
98 18 0.11
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAAC
ACATTCACATTCATCACATCGGCCATTAGGC
Found at i:52434962 original size:40 final size:40
Alignment explanation
Indices: 52434917--52435046 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
52434907 CGGAATATAA
52434917 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
52434957 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
52434997 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
52435037 CCGGATATAA
1 CCGGATATAA
52435047 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52442959 original size:40 final size:40
Alignment explanation
Indices: 52442914--52443043 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
52442904 CGGAATATAA
52442914 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
52442954 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
52442994 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
52443034 CCGGATATAA
1 CCGGATATAA
52443044 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52443064 original size:80 final size:79
Alignment explanation
Indices: 52442930--52443078 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 79
52442920 ATAACCACGT
* *
52442930 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAACGCCTTCGGG-CTTAGCC
52442995 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * ** ** *
52443010 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCATTAACGTCTTCGGGCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAACGCCTTCGGGCTTAGCC
52443074 CGGAT
65 CGGAT
52443079 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
79 13 0.22
80 46 0.78
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAACGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:52447148 original size:93 final size:93
Alignment explanation
Indices: 52447036--52447207 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
52447026 GCCCATAAGT
* *
52447036 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52447101 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
52447129 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52447194 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
52447208 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52447203 original size:46 final size:46
Alignment explanation
Indices: 52447028--52447203 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
52447018 TGTAACCCGC
* * *
52447028 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
52447074 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
52447124 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
52447167 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52447204 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:52472831 original size:44 final size:43
Alignment explanation
Indices: 52472770--52472926 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
52472760 TGTGTTTTCG
* * *
52472770 TGTAAGACCACGTCTGGGACGTTGGCAAC-AACTTATGATTTACG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGAA-TT-TGATTTACA
* *
52472814 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTT-CA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGAATTTGATTTACA
* * *
52472856 TGTAAGACCCTGTCTGGGATAG-TGGCATCGATATTTG-TCTACA
1 TGTAAGACCATGTCTGGGA-CGTTGGCATCGA-ATTTGATTTACA
*
52472899 TGTAAGACCATGTCTAGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
52472927 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
42 30 0.32
43 36 0.38
44 28 0.29
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGAATTTGATTTACA
Found at i:52475714 original size:68 final size:64
Alignment explanation
Indices: 52475471--52475729 Score: 204
Period size: 68 Copynumber: 3.9 Consensus size: 64
52475461 ATATAGTTCG
* * * * * *
52475471 GCTCTCTTGTAC-ACATGGTGAACAC-TCAGTACCACCCATGTGACCTAGCCA-ATTTATCTCGT
1 GCTCTCTTGT-CTACATGATGTACACAT-AGCACCACACATGTGACCTAGCTACATATATCTCGT
52475533 A
64 A
* * * * *
52475534 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACACATGTGACCTAGCTACATATATCTCG
1 GCTCTCTTGTCTACATGATG---TACACATAGCACCACACATGTGACCTAGCTACATATATCTCG
52475599 TA
63 TA
* * * * * *
52475601 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTCTACATGATGTACACATAGCACCACACATGTGACCTAGCTACAT-AT-A--TCTC
52475666 GTA
62 GTA
* *
52475669 GCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATACTATCT
1 GCTCTCTTGT-CTACATGATGTACACAT-AGCACCACACATGTGACCTAGCTACATA-TATCT
52475730 GTATCATCCA
Statistics
Matches: 161, Mismatches: 22, Indels: 24
0.78 0.11 0.12
Matches are distributed among these distances:
62 1 0.01
63 18 0.11
64 27 0.17
65 5 0.03
66 24 0.15
67 35 0.22
68 50 0.31
69 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.31
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGATGTACACATAGCACCACACATGTGACCTAGCTACATATATCTCGTA
Found at i:52480021 original size:25 final size:25
Alignment explanation
Indices: 52479992--52480083 Score: 157
Period size: 25 Copynumber: 3.7 Consensus size: 25
52479982 TTTTAATAAT
52479992 TGGGGCAAAGCCCTTTTCGGTAAAC
1 TGGGGCAAAGCCCTTTTCGGTAAAC
52480017 TGGGGCAAAGCCCTTTTCGGTAAAC
1 TGGGGCAAAGCCCTTTTCGGTAAAC
* *
52480042 TGGGGCAAAGCCCTTTTCTGTAAAT
1 TGGGGCAAAGCCCTTTTCGGTAAAC
*
52480067 TGGGGCATAGCCCTTTT
1 TGGGGCAAAGCCCTTTT
52480084 AGCACTTCCT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (25 bp):
TGGGGCAAAGCCCTTTTCGGTAAAC
Found at i:52480923 original size:27 final size:26
Alignment explanation
Indices: 52480893--52480970 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
52480883 GGGTATATTC
52480893 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
*
52480920 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAGGGG-TATTACG
* *
52480947 GTCTTTTTACCTATTAGGGGTATT
1 GTCATTTTACCTA-CAGGGGTATT
52480971 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 5 0.12
27 35 0.81
28 3 0.07
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:52481041 original size:27 final size:27
Alignment explanation
Indices: 52481011--52481118 Score: 85
Period size: 27 Copynumber: 3.9 Consensus size: 27
52481001 GTAAATCTAC
52481011 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
52481038 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* ** *
52481064 AGAAAGTCAAGGGTATTTTTGTAATTGTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
52481094 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
52481119 ACAAATTGAG
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.02
27 41 0.62
28 7 0.11
29 16 0.24
30 1 0.02
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:52481124 original size:27 final size:27
Alignment explanation
Indices: 52481060--52481201 Score: 126
Period size: 27 Copynumber: 5.2 Consensus size: 27
52481050 TTTCTATAAT
* * *
52481060 TTTTAGAAAGTCAAGGGTATTTTTGTAA
1 TTTTACAAA-TCAGGGGTATTTTGGTAA
* **
52481088 TTGTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* *
52481115 TTTTACAAAT-TGAGGGTATTTCGGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* * * *
52481142 TTTCACAAACCAGTGGTATTTTGATAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
*
52481169 TTTTACAAA-CTAGGGGTATTTTGGTGA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
52481196 TTTTAC
1 TTTTAC
52481202 CCTATAGGGG
Statistics
Matches: 91, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
26 2 0.02
27 82 0.90
28 7 0.08
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:52481259 original size:27 final size:27
Alignment explanation
Indices: 52481229--52481320 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
52481219 ATAATTTCAC
*
52481229 AATCGAGGGTAAAA-AGATAATTTTGTA
1 AATCGAGGGTAAAACAG-TAATTCTGTA
52481256 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* * * *
52481283 AATCAAGTGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
52481310 AATCGAGGGTA
1 AATCGAGGGTA
52481321 CTTTGATAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 55 0.96
28 2 0.04
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:52486601 original size:40 final size:40
Alignment explanation
Indices: 52486527--52486668 Score: 167
Period size: 40 Copynumber: 3.5 Consensus size: 40
52486517 CCGCACCAAG
* * * * * *
52486527 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
52486567 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
52486607 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
52486647 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
52486669 GTAATTTTCA
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:52486687 original size:40 final size:40
Alignment explanation
Indices: 52486559--52486710 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
52486549 ATCACGATTT
* * * * *
52486559 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
52486599 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * * **
52486639 GCACAATTGCCTTCGGGTCTTAACCCGGATGTA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
52486679 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
52486711 CATTCAATTT
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 4 0.04
40 89 0.94
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Done.