Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 251 of 378
Found at i:75017882 original size:18 final size:18
Alignment explanation
Indices: 75017834--75017883 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
75017824 CTTATTTTTC
*
75017834 TTTTCTTT-TATTTTTAT
1 TTTTCTTTCAATTTTTAT
**
75017851 TTTTCTTTTGATTTTTA-
1 TTTTCTTTCAATTTTTAT
75017868 TTTTCATTTCAATTTT
1 TTTTC-TTTCAATTTT
75017884 ATTATTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTCTTTCAATTTTTAT
Found at i:75021723 original size:28 final size:27
Alignment explanation
Indices: 75021660--75021729 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
75021650 ATAGTGAGTC
75021660 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
75021687 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
75021715 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
75021730 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:75024132 original size:27 final size:27
Alignment explanation
Indices: 75024102--75024163 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
75024092 GGGCAAAATG
75024102 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
75024129 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
75024156 GTAATTTT
1 GTAATTTT
75024164 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:75024187 original size:53 final size:53
Alignment explanation
Indices: 75024120--75024221 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 53
75024110 ACCCCACAAG
** *
75024120 GGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGTATTTCAGTAATTTTA-CAAACTAGGGGTATTTTAGTAATTTTACAAACCAT
** *
75024173 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA
1 GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAA
75024222 TTGAGGGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 3 0.07
53 39 0.93
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (53 bp):
GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAT
Found at i:75024211 original size:27 final size:27
Alignment explanation
Indices: 75024144--75024243 Score: 116
Period size: 27 Copynumber: 3.7 Consensus size: 27
75024134 TTTACCCTAC
* * *
75024144 AGGGGTATTTTAGTAATTTTTCAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
*
75024171 A-TGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
75024197 AGGGGTATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
*
75024223 TGAGGGTATTTCT-GTAATTTT
1 AG-GGGTATTT-TGGTAATTTT
75024244 GTAAATCGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
26 24 0.38
27 39 0.61
28 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:75024249 original size:27 final size:27
Alignment explanation
Indices: 75024146--75024257 Score: 113
Period size: 27 Copynumber: 4.2 Consensus size: 27
75024136 TACCCTACAG
* * *
75024146 GGGTATTTTAGTAATTTTTCAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATCGA
* *
75024172 TGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTTGGTAATTTTACAAATCGA
*
75024198 GGGGTATTTTGGTAATTTTACAAATTGA
1 -GGGTATTTTGGTAATTTTACAAATCGA
**
75024226 GGGTATTTCT-GTAATTTTGTAAATCGA
1 GGGTATTT-TGGTAATTTTACAAATCGA
75024253 GGGTA
1 GGGTA
75024258 AAATAGTAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 22 0.30
27 49 0.67
28 2 0.03
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:75024565 original size:27 final size:27
Alignment explanation
Indices: 75024236--75024554 Score: 404
Period size: 27 Copynumber: 11.8 Consensus size: 27
75024226 GGGTATTTCT
* **
75024236 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * **
75024263 GTAATTCTGTAAATCAAGAGAAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
75024290 GTAATTCTATAAATCGACGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
75024317 ATAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
75024344 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
75024371 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
75024398 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
75024425 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
75024452 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
75024479 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
75024506 GTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
75024533 ATAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
75024555 CTTTGGTAAT
Statistics
Matches: 254, Mismatches: 38, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 254 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:75024565 original size:54 final size:54
Alignment explanation
Indices: 75024236--75024554 Score: 449
Period size: 54 Copynumber: 5.9 Consensus size: 54
75024226 GGGTATTTCT
* ** * * * * *
75024236 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGAGAAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACA
* * * *
75024290 GTAATTCTATAAATCGACGGTAAAACGATAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACA
* *
75024344 GTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACA
*
75024398 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACA
*
75024452 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACA
* * * * *
75024506 GTAATTATGTAAATCGGGGGTAAAACGATAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
75024555 CTTTGGTAAT
Statistics
Matches: 241, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 241 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACA
Found at i:75024581 original size:27 final size:27
Alignment explanation
Indices: 75024560--75024649 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
75024550 GGGTACTTTG
*
75024560 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
75024587 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
75024614 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
75024641 GTAATTTTA
1 GTAATTTTA
75024650 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:75024591 original size:81 final size:81
Alignment explanation
Indices: 75024236--75024608 Score: 309
Period size: 81 Copynumber: 4.6 Consensus size: 81
75024226 GGGTATTTCT
** * * * * * * * * *
75024236 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGAGAAAAATAGTAATTCTATA
1 GTAATTTTACAAATCGAAGGTAAAACAGTAATTATATAAATCGAGGGTAAAACAGTAATTCTGTA
*
75024301 AATCGACGGTAAAACG
66 AATCGAGGGTAAAACG
* ** * * * * * *
75024317 ATAATTTTGTAAATC-AAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTAT
1 GTAATTTTACAAATCGAA-GGTAAAACAGTAATTATATAAATCGAGGGTAAAACAGTAATTCTGT
*
75024381 AAATCGAGGGTAAAACA
65 AAATCGAGGGTAAAACG
* ** * * *
75024398 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTA
1 GTAATTTTACAAATCGAAGGTAAAACAGTAATTATATAAATCGAGGGTAAAACAGTAATTCTGTA
75024463 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
** * * * *
75024479 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTATGTAAATCGGGGGTAAAAC-GATAATTCTGT
1 GTAATTTTACAAATCGAAGGTAAAACAGTAATTATATAAATCGAGGGTAAAACAG-TAATTCTGT
* ****
75024543 AAATCGGGGGTACTTTG
65 AAATCGAGGGTAAAACG
* *** * *
75024560 GTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTACAAATCGAGGGTA
1 GTAATTTTACAAATCGAAGGTAAAACAGTAATTATATAAATCGAGGGTA
75024609 TTTCAGTATT
Statistics
Matches: 247, Mismatches: 42, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
80 2 0.01
81 244 0.99
82 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (81 bp):
GTAATTTTACAAATCGAAGGTAAAACAGTAATTATATAAATCGAGGGTAAAACAGTAATTCTGTA
AATCGAGGGTAAAACG
Found at i:75024601 original size:54 final size:54
Alignment explanation
Indices: 75024543--75024649 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
75024533 ATAATTCTGT
* * *
75024543 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
75024597 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
75024650 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:75024663 original size:27 final size:27
Alignment explanation
Indices: 75024560--75024664 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
75024550 GGGTACTTTG
* *
75024560 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
75024587 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
75024614 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
75024641 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
75024665 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:75027861 original size:40 final size:40
Alignment explanation
Indices: 75027802--75028009 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
75027792 CAATTGAATG
* * * *
75027802 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
75027842 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
75027882 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
75027922 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
75027962 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
75028002 ATATCCGG
1 ATATCCGG
75028010 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:75027940 original size:80 final size:80
Alignment explanation
Indices: 75027803--75028009 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
75027793 AATTGAATGA
* * ** * * *
75027803 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
75027868 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
75027881 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
75027946 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
75027963 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
75028010 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:75037951 original size:29 final size:29
Alignment explanation
Indices: 75037918--75038076 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
75037908 GTGACGAGAT
75037918 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
75037947 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
75037976 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* * * ***
75038005 CGGCACT-GGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
75038033 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
75038062 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
75038077 GAAATGAGTA
Statistics
Matches: 111, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
28 22 0.20
29 89 0.80
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:75045989 original size:29 final size:29
Alignment explanation
Indices: 75045956--75046115 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
75045946 GTGACGAGAT
75045956 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
75045985 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
75046014 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
75046043 CGGCACTGTGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
75046072 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
75046101 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
75046116 GAAATGGAGT
Statistics
Matches: 112, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
28 2 0.02
29 109 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:75049681 original size:40 final size:40
Alignment explanation
Indices: 75049622--75049829 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
75049612 CAATTGAATG
* * * *
75049622 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
75049662 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
75049702 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
75049742 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
75049782 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
75049822 ATATCCGG
1 ATATCCGG
75049830 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:75049760 original size:80 final size:80
Alignment explanation
Indices: 75049623--75049829 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
75049613 AATTGAATGA
* * ** * * *
75049623 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
75049688 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
75049701 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
75049766 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
75049783 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
75049830 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:75058109 original size:28 final size:27
Alignment explanation
Indices: 75058046--75058115 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
75058036 ATAGTGAGTC
75058046 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
75058073 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
*
75058101 CGTACACTTAGTGCT
1 CGCACACTTAGTGCT
75058116 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 23 0.56
28 18 0.44
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:75058607 original size:2 final size:2
Alignment explanation
Indices: 75058594--75058629 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
75058584 CATACTTATG
*
75058594 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
75058630 CACTTCCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:75060747 original size:14 final size:13
Alignment explanation
Indices: 75060710--75060753 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
75060700 ATCTTCTTAT
75060710 GAAAAGAAAACAA
1 GAAAAGAAAACAA
*
75060723 GAAAAGTAAAAGAA
1 GAAAAG-AAAACAA
75060737 GTAAAAGAAAA-AA
1 G-AAAAGAAAACAA
75060750 GAAA
1 GAAA
75060754 TAAAAGAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 3 0.11
13 9 0.32
14 11 0.39
15 5 0.18
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (13 bp):
GAAAAGAAAACAA
Found at i:75060751 original size:16 final size:16
Alignment explanation
Indices: 75060730--75060760 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
75060720 CAAGAAAAGT
*
75060730 AAAAGAAGTAAAAGAA
1 AAAAGAAATAAAAGAA
75060746 AAAAGAAATAAAAGA
1 AAAAGAAATAAAAGA
75060761 GAGGCAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.06
Consensus pattern (16 bp):
AAAAGAAATAAAAGAA
Found at i:75060769 original size:27 final size:28
Alignment explanation
Indices: 75060711--75060770 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
75060701 TCTTCTTATG
*
75060711 AAAAGAAAACAAGAAAAGTAAAAGAAGT
1 AAAAGAAAACAAGAAAAGTAAAAGAAGC
75060739 AAAAGAAAA-AAG-AAA-TAAAAGAGAGGC
1 AAAAGAAAACAAGAAAAGTAAAAGA-A-GC
75060766 AAAAG
1 AAAAG
75060771 GCGAATAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 7 0.24
26 4 0.14
27 9 0.31
28 9 0.31
ACGTcount: A:0.72, C:0.03, G:0.20, T:0.05
Consensus pattern (28 bp):
AAAAGAAAACAAGAAAAGTAAAAGAAGC
Found at i:75060869 original size:12 final size:12
Alignment explanation
Indices: 75060840--75060901 Score: 72
Period size: 12 Copynumber: 5.2 Consensus size: 12
75060830 GTTGAAAAAG
*
75060840 AAAGAGAAT-AA
1 AAAGAGATTGAA
*
75060851 AAAGAGAGTGAA
1 AAAGAGATTGAA
*
75060863 AATGAGATTGAA
1 AAAGAGATTGAA
*
75060875 AAAGAAATTGAA
1 AAAGAGATTGAA
*
75060887 AAAGAGAATGAA
1 AAAGAGATTGAA
75060899 AAA
1 AAA
75060902 AAAGTTTGAG
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
11 8 0.19
12 35 0.81
ACGTcount: A:0.65, C:0.00, G:0.23, T:0.13
Consensus pattern (12 bp):
AAAGAGATTGAA
Found at i:75060886 original size:24 final size:24
Alignment explanation
Indices: 75060840--75060906 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
75060830 GTTGAAAAAG
*
75060840 AAAGAGAAT-AAAAAGAGAGTGAA
1 AAAGAGAATGAAAAAGAAAGTGAA
* * *
75060863 AATGAGATTGAAAAAGAAATTGAA
1 AAAGAGAATGAAAAAGAAAGTGAA
75060887 AAAGAGAATGAAAAA-AAAGT
1 AAAGAGAATGAAAAAGAAAGT
75060907 TTGAGAGAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
23 11 0.31
24 25 0.69
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.13
Consensus pattern (24 bp):
AAAGAGAATGAAAAAGAAAGTGAA
Found at i:75081722 original size:86 final size:86
Alignment explanation
Indices: 75081577--75081734 Score: 255
Period size: 86 Copynumber: 1.8 Consensus size: 86
75081567 ACAATAGATT
* * *
75081577 AAATCGAATATATGCTTCAACCAATGAAATAAACGTTCATGCTGTAATCTTGGGCCTATGAGATT
1 AAATCGAATATATGCTTCAACCAAGGAAATAAACGTTCATCCTGTAATCTTGGCCCTATGAGATT
75081642 TAGCTCATGGGTTGGCAATTA
66 TAGCTCATGGGTTGGCAATTA
* *
75081663 AAATCGAATATATGCTTCAACCAAGGAAATAAAGGTTTA-CCTTGTAATCTTGGCCCTATGAGAT
1 AAATCGAATATATGCTTCAACCAAGGAAATAAACGTTCATCC-TGTAATCTTGGCCCTATGAGAT
75081727 TTAGCTCA
65 TTAGCTCA
75081735 AGTTCAAAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
85 1 0.02
86 65 0.98
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (86 bp):
AAATCGAATATATGCTTCAACCAAGGAAATAAACGTTCATCCTGTAATCTTGGCCCTATGAGATT
TAGCTCATGGGTTGGCAATTA
Found at i:75088876 original size:46 final size:44
Alignment explanation
Indices: 75088733--75088989 Score: 185
Period size: 46 Copynumber: 5.5 Consensus size: 44
75088723 TTTGTGGGCT
* ** * *
75088733 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGTTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGA-CATAGCC
* * * * * *
75088779 AGTGTAAGATGATGTCTAGAACATGACATCAGCAAT-GAGAC-GAGACT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGC--TCGAGACATAG-CC
*
75088826 AGTGTAAGACATGTCTGGGAGATGCATCGGCCTCGAGACATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGACAT-AGCC
* * *
75088872 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGATAGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGA-CATAGCC
* * *
75088918 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTCGAGACAT-AGCC
* *
75088965 AGTGTAAGGCCATGTCGGGGACATG
1 AGTGTAA-GACATGTCTGGGACATG
75088990 GTGTCGGCAC
Statistics
Matches: 169, Mismatches: 27, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
44 1 0.01
45 12 0.07
46 73 0.43
47 67 0.40
48 16 0.09
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.21
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGACATAGCC
Found at i:75088990 original size:47 final size:48
Alignment explanation
Indices: 75088868--75088990 Score: 146
Period size: 47 Copynumber: 2.6 Consensus size: 48
75088858 TCGAGACATA
* *
75088868 AGCCAGTGTAA-GACATGTCTGGGACAT-GCATCGGCTACAAGATGAT
1 AGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGACTACAAGATGAT
* * **
75088914 AGGCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGAT-AT
1 AGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGACTACAAGATGAT
*
75088960 GAGCCAGTGTAAGGCCATGTCGGGGACATGG
1 -AGCCAGTGTAAGGCCATGTCTGGGACATGG
75088991 TGTCGGCACC
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
46 12 0.18
47 45 0.69
48 8 0.12
ACGTcount: A:0.28, C:0.19, G:0.33, T:0.21
Consensus pattern (48 bp):
AGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGACTACAAGATGAT
Found at i:75089824 original size:104 final size:104
Alignment explanation
Indices: 75089644--75089847 Score: 381
Period size: 104 Copynumber: 2.0 Consensus size: 104
75089634 GGTATGTAAG
75089644 ATGAAGCTTGGCAAATAGCCTTATATTGTCCACACGGGTAGTCACACGAGCATGTGTCTAGGCCG
1 ATGAAGCTTGGCAAATAGCCTTATATTGTCCACACGGGTAGTCACACGAGCATGTGTCTAGGCCG
75089709 TGTGTGACACACGGCCTGCCCCATGGGCTTGTGGTGACA
66 TGTGTGACACACGGCCTGCCCCATGGGCTTGTGGTGACA
* * *
75089748 ATGAAGCTTGGCAAATAGCCTTATATTGTCTACACGGGTAGTCACACGAGCGTGTGTCTAGGTCG
1 ATGAAGCTTGGCAAATAGCCTTATATTGTCCACACGGGTAGTCACACGAGCATGTGTCTAGGCCG
75089813 TGTGTGACACACGGCCTGCCCCATGGGCTTGTGGT
66 TGTGTGACACACGGCCTGCCCCATGGGCTTGTGGT
75089848 TCGGCCATCT
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 97 1.00
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.25
Consensus pattern (104 bp):
ATGAAGCTTGGCAAATAGCCTTATATTGTCCACACGGGTAGTCACACGAGCATGTGTCTAGGCCG
TGTGTGACACACGGCCTGCCCCATGGGCTTGTGGTGACA
Found at i:75091576 original size:46 final size:45
Alignment explanation
Indices: 75091416--75091585 Score: 154
Period size: 46 Copynumber: 3.7 Consensus size: 45
75091406 CCCGCCCTTA
* * * *
75091416 AGTGAACTCAGACTCAACTCAATGAGCTCTGG-C-GTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCAT
*
75091460 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT
* *
75091508 CA-CGAACTCGGAATCAACTCAACGAGTTCGGACATTCGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
75091553 AGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
75091586 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 11, Indels: 23
0.75 0.08 0.17
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 5 0.05
45 27 0.26
46 28 0.27
47 28 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
Found at i:75092042 original size:30 final size:30
Alignment explanation
Indices: 75092008--75092067 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
75091998 ATTTAATACG
75092008 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
75092038 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
75092068 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:75097294 original size:29 final size:29
Alignment explanation
Indices: 75097259--75097444 Score: 338
Period size: 29 Copynumber: 6.4 Consensus size: 29
75097249 TGAAAAACTT
*
75097259 GCACACACAGTGCCTCAATTACTGATCTC
1 GCACACATAGTGCCTCAATTACTGATCTC
75097288 GCACACATAGTGCCTCAATTACTGATCTC
1 GCACACATAGTGCCTCAATTACTGATCTC
75097317 GCACACATAGTGCCTCAATTACTGA-CTC
1 GCACACATAGTGCCTCAATTACTGATCTC
*
75097345 GCACACATAGTACCTCAATTACTGATCTC
1 GCACACATAGTGCCTCAATTACTGATCTC
75097374 GCACACATAGTGCCTCAATTACTGATCTC
1 GCACACATAGTGCCTCAATTACTGATCTC
*
75097403 GCACACATAGTGCCTCGATTACTGATCTC
1 GCACACATAGTGCCTCAATTACTGATCTC
75097432 GCACACATAGTGC
1 GCACACATAGTGC
75097445 TCGGTTAACG
Statistics
Matches: 152, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
28 27 0.18
29 125 0.82
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
GCACACATAGTGCCTCAATTACTGATCTC
Found at i:75097328 original size:86 final size:85
Alignment explanation
Indices: 75097232--75097415 Score: 269
Period size: 86 Copynumber: 2.1 Consensus size: 85
75097222 TCTCATTTCA
* ** * *
75097232 CACACTTAGTGCTCTGTTGAAAAACTTGCACACACAGTGCCTCAATTACTGATCTCGCACACATA
1 CACACATAGTGCTCAATT-AAAAACTCGCACACACAGTACCTCAATTACTGATCTCGCACACATA
75097297 GTGCCTCAATTACTGATCTCG
65 GTGCCTCAATTACTGATCTCG
*** *
75097318 CACACATAGTGCCTCAATTACTGACTCGCACACATAGTACCTCAATTACTGATCTCGCACACATA
1 CACACATAGTG-CTCAATTAAAAACTCGCACACACAGTACCTCAATTACTGATCTCGCACACATA
75097383 GTGCCTCAATTACTGATCTCG
65 GTGCCTCAATTACTGATCTCG
75097404 CACACATAGTGC
1 CACACATAGTGC
75097416 CTCGATTACT
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
85 1 0.01
86 82 0.93
87 5 0.06
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (85 bp):
CACACATAGTGCTCAATTAAAAACTCGCACACACAGTACCTCAATTACTGATCTCGCACACATAG
TGCCTCAATTACTGATCTCG
Found at i:75097416 original size:86 final size:87
Alignment explanation
Indices: 75097259--75097442 Score: 334
Period size: 86 Copynumber: 2.1 Consensus size: 87
75097249 TGAAAAACTT
* *
75097259 GCACACACAGTGCCTCAATTACTGATCTCGCACACATAGTGCCTCAATTACTGATCTCGCACACA
1 GCACACATAGTACCTCAATTACTGATCTCGCACACATAGTGCCTCAATTACTGATCTCGCACACA
75097324 TAGTGCCTCAATTACTGA-CTC
66 TAGTGCCTCAATTACTGATCTC
75097345 GCACACATAGTACCTCAATTACTGATCTCGCACACATAGTGCCTCAATTACTGATCTCGCACACA
1 GCACACATAGTACCTCAATTACTGATCTCGCACACATAGTGCCTCAATTACTGATCTCGCACACA
*
75097410 TAGTGCCTCGATTACTGATCTC
66 TAGTGCCTCAATTACTGATCTC
75097432 GCACACATAGT
1 GCACACATAGT
75097443 GCTCGGTTAA
Statistics
Matches: 94, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
86 80 0.85
87 14 0.15
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (87 bp):
GCACACATAGTACCTCAATTACTGATCTCGCACACATAGTGCCTCAATTACTGATCTCGCACACA
TAGTGCCTCAATTACTGATCTC
Found at i:75099566 original size:37 final size:37
Alignment explanation
Indices: 75099513--75099598 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
75099503 TTATTACGAA
75099513 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
75099550 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
75099587 GTCTCACCCGGA
1 GTCTTACCCGGA
75099599 ACATTTCCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.22, C:0.34, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:75099753 original size:49 final size:49
Alignment explanation
Indices: 75099698--75099964 Score: 400
Period size: 49 Copynumber: 5.5 Consensus size: 49
75099688 TTTTACATTA
*
75099698 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* *
75099747 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
*
75099796 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
*
75099845 GCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* * *
75099892 GCCA-TACGGCCTTATCAC--ACATATGCACTTTCACATTCATCACATTG
1 GCCATTA-GGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* *
75099939 GCCATTCGGCCTTATCACACATATAT
1 GCCATTAGGCCTTATCACATATATAT
75099965 GTATATCATA
Statistics
Matches: 206, Mismatches: 8, Indels: 8
0.93 0.04 0.04
Matches are distributed among these distances:
46 2 0.01
47 84 0.41
48 1 0.00
49 119 0.58
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.31
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
Found at i:75103539 original size:29 final size:29
Alignment explanation
Indices: 75103503--75103692 Score: 362
Period size: 29 Copynumber: 6.6 Consensus size: 29
75103493 TGTTGAAAAA
*
75103503 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
75103532 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
75103561 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
75103590 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
75103619 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
75103648 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
75103677 CTCGCACACATAGTGC
1 CTCGCACACATAGTGC
75103693 TCGGTTAACG
Statistics
Matches: 159, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 159 1.00
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACTGAT
Found at i:75105818 original size:37 final size:37
Alignment explanation
Indices: 75105765--75105850 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
75105755 TTATTACGAA
75105765 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
75105802 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
75105839 GTCTCACCCGGA
1 GTCTTACCCGGA
75105851 ACATTTCCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.22, C:0.34, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:75106005 original size:49 final size:49
Alignment explanation
Indices: 75105950--75106216 Score: 400
Period size: 49 Copynumber: 5.5 Consensus size: 49
75105940 TTTTACATTA
*
75105950 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* *
75105999 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
*
75106048 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
*
75106097 GCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* * *
75106144 GCCA-TACGGCCTTATCAC--ACATATGCACTTTCACATTCATCACATTG
1 GCCATTA-GGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* *
75106191 GCCATTCGGCCTTATCACACATATAT
1 GCCATTAGGCCTTATCACATATATAT
75106217 GTATATCATA
Statistics
Matches: 206, Mismatches: 8, Indels: 8
0.93 0.04 0.04
Matches are distributed among these distances:
46 2 0.01
47 84 0.41
48 1 0.00
49 119 0.58
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.31
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
Found at i:75110080 original size:34 final size:34
Alignment explanation
Indices: 75110015--75110080 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
75110005 TGTATTTTGT
* * *
75110015 ACTGTTACTAATACTGTAATGGGCTAGGGCCCAC
1 ACTGATACTAATACTGTAATGGGCCAAGGCCCAC
75110049 ACTGATACTAATACTGTAATGGGCCAAGGCCC
1 ACTGATACTAATACTGTAATGGGCCAAGGCCC
75110081 TAACTAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (34 bp):
ACTGATACTAATACTGTAATGGGCCAAGGCCCAC
Found at i:75114801 original size:27 final size:26
Alignment explanation
Indices: 75114749--75114807 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
75114739 ACATATATAT
*
75114749 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
75114775 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
75114802 ATATCT
1 ATATCT
75114808 ACCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:75121768 original size:27 final size:26
Alignment explanation
Indices: 75121724--75121775 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
75121714 CTCGCTGCAA
*
75121724 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
75121751 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
75121776 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:75121878 original size:27 final size:26
Alignment explanation
Indices: 75121826--75121885 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
75121816 ATATATATAT
*
75121826 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
75121852 ATATCTGTATTTGGTGACCTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
75121879 ATATCTG
1 ATATCTG
75121886 GCAGCTTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:75128077 original size:28 final size:28
Alignment explanation
Indices: 75128037--75128110 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
75128027 GTTCAAATTG
* *
75128037 TATAGCACTAAGTGTGCAAGTTTGATTA
1 TATAGCACTAAGTGTGCAAGTTCGACTA
*
75128065 TATAGCACTAAGTGTGCGAGTTCGACTA
1 TATAGCACTAAGTGTGCAAGTTCGACTA
75128093 T-TAAGCACTAAGTGTGCA
1 TAT-AGCACTAAGTGTGCA
75128111 GGCTTATTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCAAGTTCGACTA
Found at i:75131921 original size:24 final size:22
Alignment explanation
Indices: 75131889--75131944 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
75131879 GCTGATAAAT
75131889 AGTAAGCTCTATTGAG-TAGAAAAC
1 AGTAAGCTCTATTGAGCT-G--AAC
*
75131913 AGTAAGCTCCATTGAGCTGAAC
1 AGTAAGCTCTATTGAGCTGAAC
75131935 AGTAAGCTCT
1 AGTAAGCTCT
75131945 TACGAGCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 12 0.41
24 16 0.55
25 1 0.03
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (22 bp):
AGTAAGCTCTATTGAGCTGAAC
Found at i:75135089 original size:29 final size:29
Alignment explanation
Indices: 75135057--75135133 Score: 129
Period size: 29 Copynumber: 2.7 Consensus size: 29
75135047 AATCATATTC
75135057 ATATGGCCCATTAGGCCCAAATCACCA-AT
1 ATATGGCCCATTAGGCCCAAATCA-CATAT
*
75135086 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATAT
75135115 ATATGGCCCATTAGGCCCA
1 ATATGGCCCATTAGGCCCA
75135134 GCCACGTTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 2 0.04
29 44 0.96
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATAT
Found at i:75135385 original size:8 final size:8
Alignment explanation
Indices: 75135356--75135399 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
75135346 GTAGCCAAAC
75135356 TTTCGGCT
1 TTTCGGCT
** *
75135364 TTTTAGCA
1 TTTCGGCT
75135372 TTTCGGCT
1 TTTCGGCT
75135380 TTTCGGCT
1 TTTCGGCT
75135388 TTTCGGCAT
1 TTTCGGC-T
75135397 TTT
1 TTT
75135400 GACTTTTGCC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
8 25 0.86
9 4 0.14
ACGTcount: A:0.07, C:0.20, G:0.20, T:0.52
Consensus pattern (8 bp):
TTTCGGCT
Found at i:75135405 original size:24 final size:24
Alignment explanation
Indices: 75135356--75135406 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
75135346 GTAGCCAAAC
* *
75135356 TTTCGGCTTTTTAGCATTTCGGCT
1 TTTCGGCTTTTCAGCATTTCGACT
* *
75135380 TTTCGGCTTTTCGGCATTTTGACT
1 TTTCGGCTTTTCAGCATTTCGACT
75135404 TTT
1 TTT
75135407 GCCGATACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.08, C:0.20, G:0.20, T:0.53
Consensus pattern (24 bp):
TTTCGGCTTTTCAGCATTTCGACT
Found at i:75147089 original size:2 final size:2
Alignment explanation
Indices: 75147082--75147107 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
75147072 GAGACTAGTC
75147082 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
75147108 GTCATGATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75155894 original size:38 final size:38
Alignment explanation
Indices: 75155837--75155909 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
75155827 ATTCGGGTTA
*
75155837 AATCCCGCAGCCTTCGTGCTGGTATTATATCCGGGATG
1 AATCCCGCAGCCTTAGTGCTGGTATTATATCCGGGATG
*
75155875 AATCCCGCAGGCC-TAGTGCTGGTATTATATTCGGG
1 AATCCCGCA-GCCTTAGTGCTGGTATTATATCCGGG
75155910 CCTTCGTGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
38 29 0.91
39 3 0.09
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (38 bp):
AATCCCGCAGCCTTAGTGCTGGTATTATATCCGGGATG
Found at i:75155956 original size:43 final size:43
Alignment explanation
Indices: 75155881--75156069 Score: 247
Period size: 43 Copynumber: 4.4 Consensus size: 43
75155871 GATGAATCCC
* * *
75155881 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCGTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
75155922 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCGTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * * * *
75155965 GCAAGCTTCGTGCCGGTGTTGTGTATTCGGGCCTTCATGCCTA
1 GCAGGCGTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
75156008 GCAGACGTAATGCCGGTGATGTGTATTCAGGCCTTCGTGCCTA
1 GCAGGCGTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
75156051 GCAGGCGTAATGCCGGTGA
1 GCAGGCGTAGTGCCGGTGA
75156070 AATGATATGT
Statistics
Matches: 130, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
41 15 0.12
42 2 0.02
43 113 0.87
ACGTcount: A:0.15, C:0.24, G:0.32, T:0.29
Consensus pattern (43 bp):
GCAGGCGTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:75159198 original size:16 final size:16
Alignment explanation
Indices: 75159177--75159210 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
75159167 TCGGCAAATC
*
75159177 CCGAAATGCCGAAAAG
1 CCGAAATGCCAAAAAG
75159193 CCGAAATGCCAAAAAG
1 CCGAAATGCCAAAAAG
75159209 CC
1 CC
75159211 AAAAGTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.29, G:0.21, T:0.06
Consensus pattern (16 bp):
CCGAAATGCCAAAAAG
Found at i:75159480 original size:28 final size:29
Alignment explanation
Indices: 75159426--75159487 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 29
75159416 GAAAGCATGA
*
75159426 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
*
75159455 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
75159483 ATATG
1 ATATG
75159488 CATGTATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 20 0.65
29 11 0.35
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGGCC
Found at i:75162341 original size:43 final size:43
Alignment explanation
Indices: 75162280--75162366 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
75162270 CGTTTAACAT
* *
75162280 AAGTTAAAACTTATAAACTACATTTATTAATGTTAAGCATACA
1 AAGTTAAAACTTACAAACTACATTTATTAATGCTAAGCATACA
75162323 AAGTTAAAACTTACAAACTACATTTATTAATGCTAAGCATACA
1 AAGTTAAAACTTACAAACTACATTTATTAATGCTAAGCATACA
75162366 A
1 A
75162367 TTAACATGCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (43 bp):
AAGTTAAAACTTACAAACTACATTTATTAATGCTAAGCATACA
Found at i:75164837 original size:26 final size:26
Alignment explanation
Indices: 75164808--75164867 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
75164798 CCAATATCAC
*
75164808 AGCAAAGTTGCCAGTAATAATAA-TGT
1 AGCAAAGCTGCCAG-AATAATAAGTGT
* *
75164834 AGCATAGCTGCCAGAATAGTAAGTGT
1 AGCAAAGCTGCCAGAATAATAAGTGT
*
75164860 GGCAAAGC
1 AGCAAAGC
75164868 CACCAGTATC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 7 0.25
26 21 0.75
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (26 bp):
AGCAAAGCTGCCAGAATAATAAGTGT
Found at i:75164881 original size:27 final size:25
Alignment explanation
Indices: 75164828--75164934 Score: 88
Period size: 27 Copynumber: 4.1 Consensus size: 25
75164818 CCAGTAATAA
* ** * *
75164828 TAATGTAGCATAGCTGCCAGAATAG
1 TAATGTGGCATAGCCACCAGTACAG
*
75164853 TAAGTGTGGCAAAGCCACCAGTATCAG
1 TAA-TGTGGCATAGCCACCAGTA-CAG
*
75164880 TAATTGTGGCATAGCCACCAGCAACAG
1 TAA-TGTGGCATAGCCACCAG-TACAG
* *
75164907 TGAATGTGACATAGTCACCAGTACAG
1 T-AATGTGGCATAGCCACCAGTACAG
75164933 TA
1 TA
75164935 CTTCTTCCAT
Statistics
Matches: 66, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
25 4 0.06
26 19 0.29
27 40 0.61
28 3 0.05
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (25 bp):
TAATGTGGCATAGCCACCAGTACAG
Found at i:75165099 original size:27 final size:27
Alignment explanation
Indices: 75165069--75165267 Score: 249
Period size: 27 Copynumber: 7.4 Consensus size: 27
75165059 GGGCATAATC
*
75165069 GTCATTTTACCATACAGGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACA
* * *
75165096 GTCATTTTACCCTACAAGGGCATTA-T
1 GTCATTTTACCCTACAGGGGTATTACA
* *
75165122 GTTCATTTTACCCTACAGGGGCATTACG
1 G-TCATTTTACCCTACAGGGGTATTACA
*
75165150 GTCATTTTACCCTACAGGGGCATTAC-
1 GTCATTTTACCCTACAGGGGTATTACA
*
75165176 GAACATTTTACCCTACAGGGGTATTACA
1 G-TCATTTTACCCTACAGGGGTATTACA
* *
75165204 GTCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACA
* *
75165231 GTCATTTTACCCTACAAGGGTATTTCA
1 GTCATTTTACCCTACAGGGGTATTACA
*
75165258 GTAATTTTAC
1 GTCATTTTAC
75165268 AAACTGAGGT
Statistics
Matches: 152, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
26 2 0.01
27 148 0.97
28 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACA
Found at i:75167876 original size:46 final size:46
Alignment explanation
Indices: 75167689--75167910 Score: 161
Period size: 46 Copynumber: 4.8 Consensus size: 46
75167679 GGGTCACTTG
* * * **
75167689 TGTAAGCTAGTATAAGACATGTCTGGGACATGCATCGGCTACATTA
1 TGTAAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCTACAAGA
* * * * **
75167735 CG-AGAGCCAATGTAAGACCATGTCTGGGACATGGCATCAGC-ATTGAGA
1 TGTA-AGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCTA-CAAGA
* * * *
75167783 CG-AATGCTAGTGTAAGACATGTTTAGGACATGCATCGGCCT-CGAGA
1 TGTAA-GCTAGTGTAAGACATGTCTAGGACATGCATCAG-CTACAAGA
*
75167829 TGTAAGCTAGTGTAAGACATGTCTAGGAGATGCATCAGCTACAAGA
1 TGTAAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCTACAAGA
*
75167875 TGT--G-TCAGTGTAAGACCATGTCTGGGACATGGCATC
1 TGTAAGCT-AGTGTAAGA-CATGTCTAGGACAT-GCATC
75167911 GGCACAGATA
Statistics
Matches: 142, Mismatches: 22, Indels: 24
0.76 0.12 0.13
Matches are distributed among these distances:
43 1 0.01
44 10 0.07
45 15 0.11
46 64 0.45
47 31 0.22
48 21 0.15
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (46 bp):
TGTAAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCTACAAGA
Found at i:75172322 original size:17 final size:18
Alignment explanation
Indices: 75172304--75172338 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
75172294 TGGTTTTGAG
*
75172304 AAGTTTAGAATGTGAAGA
1 AAGTTTAAAATGTGAAGA
*
75172322 AATTTTAAAATGTGAAG
1 AAGTTTAAAATGTGAAG
75172339 TTAAGGTGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (18 bp):
AAGTTTAAAATGTGAAGA
Found at i:75172372 original size:21 final size:22
Alignment explanation
Indices: 75172341--75172382 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
75172331 ATGTGAAGTT
*
75172341 AAGGTGTTTTAAGTTTAAAAAC
1 AAGGTGTTTTAAGGTTAAAAAC
*
75172363 AAGG-GTTTTAGGGTTAAAAA
1 AAGGTGTTTTAAGGTTAAAAA
75172383 TTGGGTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.33
Consensus pattern (22 bp):
AAGGTGTTTTAAGGTTAAAAAC
Found at i:75176947 original size:18 final size:18
Alignment explanation
Indices: 75176924--75176961 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
75176914 GGGTCTTTAA
75176924 AGGGCAATTAGACCCTTT
1 AGGGCAATTAGACCCTTT
75176942 AGGGCAATTAGACCCTTT
1 AGGGCAATTAGACCCTTT
75176960 AG
1 AG
75176962 AGAGGCTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (18 bp):
AGGGCAATTAGACCCTTT
Found at i:75186827 original size:20 final size:20
Alignment explanation
Indices: 75186802--75186852 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
75186792 ATGAATGTTT
75186802 ATGAAAATTTATAAATTTTG
1 ATGAAAATTTATAAATTTTG
*
75186822 ATGAAAAGTTATAAATTTTG
1 ATGAAAATTTATAAATTTTG
75186842 ATGAAAATTTA
1 ATGAAAATTTA
75186853 CGTCTTGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGAAAATTTATAAATTTTG
Found at i:75190536 original size:40 final size:39
Alignment explanation
Indices: 75190482--75190665 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
75190472 CCGCACCAAG
* * *
75190482 GCCTACGGGACTTAGCCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATAT-ACGACTTGCACAAAT
* * * *
75190522 GCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATA-TACGACTTGCACAAAT
* * * *
75190562 GCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATA-CGACTTGCACAAAT
* * * *
75190602 GCCTTCGGGTCTTAACCCGGTTATA--ATTTCCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATACGACTTGCA-CA-AA-T
* *
75190642 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
75190666 CATTCAATTT
Statistics
Matches: 114, Mismatches: 25, Indels: 10
0.77 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 2 0.02
40 106 0.93
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATACGACTTGCACAAAT
Found at i:75190576 original size:80 final size:80
Alignment explanation
Indices: 75190473--75190621 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 80
75190463 TATGGTAACC
* * * *
75190473 CGCACCAAGGCCTACGGGACTTAGCCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAGCCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
75190537 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * *
75190553 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAGCCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
75190618 CCGG
66 CCGG
75190622 TTATAATTTC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 57 0.98
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAGCCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:75197169 original size:39 final size:39
Alignment explanation
Indices: 75197124--75197201 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
75197114 GTTCGATGAG
75197124 ATTATGTATAGATTATCGACAGCTTAACAAGATGACTAT
1 ATTATGTATAGATTATCGACAGCTTAACAAGATGACTAT
75197163 ATTATGTATAGATTATCGACAGCTTAACAAGATGACTAT
1 ATTATGTATAGATTATCGACAGCTTAACAAGATGACTAT
75197202 TAAGAACAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (39 bp):
ATTATGTATAGATTATCGACAGCTTAACAAGATGACTAT
Found at i:75201081 original size:53 final size:53
Alignment explanation
Indices: 75201006--75201110 Score: 147
Period size: 53 Copynumber: 2.0 Consensus size: 53
75200996 ATAAACTACG
* * * *
75201006 ATAAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATGACAATGGTGAGTTC
1 ATAAGGCAAAGATACCACGTAAGACCATGCCAAGACATGACAATGGTAAGTTC
* * *
75201059 ATAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 ATAAGGCAAAGATACCACGTAAGACCATGCCAAGACATGACAATGGTAAGTT
75201111 TAAAAAGGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (53 bp):
ATAAGGCAAAGATACCACGTAAGACCATGCCAAGACATGACAATGGTAAGTTC
Found at i:75202665 original size:15 final size:17
Alignment explanation
Indices: 75202635--75202666 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
75202625 TTGATACTTG
75202635 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
75202652 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
75202667 AATTATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:75207102 original size:24 final size:25
Alignment explanation
Indices: 75207075--75207126 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
75207065 GCCTAGCCTC
75207075 TTTT-AATAACTGGGGCAAAGCCCT
1 TTTTGAATAACTGGGGCAAAGCCCT
*
75207099 TTTTGATTAACTGGGGCAAAGCCCT
1 TTTTGAATAACTGGGGCAAAGCCCT
75207124 TTT
1 TTT
75207127 GCACTTCCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (25 bp):
TTTTGAATAACTGGGGCAAAGCCCT
Found at i:75215669 original size:25 final size:25
Alignment explanation
Indices: 75215641--75215711 Score: 124
Period size: 25 Copynumber: 2.8 Consensus size: 25
75215631 CCTCTTTTAA
75215641 TAACTGGGGCAAAGCCCTTTTTGAT
1 TAACTGGGGCAAAGCCCTTTTTGAT
*
75215666 TAACTAGGGCAAAGCCCTTTTTGAT
1 TAACTGGGGCAAAGCCCTTTTTGAT
*
75215691 TAATTGGGGCAAAGCCCTTTT
1 TAACTGGGGCAAAGCCCTTTT
75215712 GCACTTCTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (25 bp):
TAACTGGGGCAAAGCCCTTTTTGAT
Found at i:75215783 original size:21 final size:21
Alignment explanation
Indices: 75215758--75215828 Score: 108
Period size: 21 Copynumber: 3.4 Consensus size: 21
75215748 TATAATGAGT
* **
75215758 ATATCATGTGCATCTCATAAC
1 ATATCATGTGCATATCATGTC
75215779 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATGTC
75215800 ATATCATGT-CATATCATGTC
1 ATATCATGTGCATATCATGTC
75215820 ATATCATGT
1 ATATCATGT
75215829 ATATCAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 20 0.43
21 27 0.57
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (21 bp):
ATATCATGTGCATATCATGTC
Found at i:75215802 original size:10 final size:10
Alignment explanation
Indices: 75215758--75215834 Score: 102
Period size: 10 Copynumber: 7.6 Consensus size: 10
75215748 TATAATGAGT
75215758 ATATCATGTGC
1 ATATCATGT-C
* **
75215769 ATCTCATAAC
1 ATATCATGTC
75215779 ATATCATGTGC
1 ATATCATGT-C
75215790 ATATCATGTC
1 ATATCATGTC
75215800 ATATCATGTC
1 ATATCATGTC
75215810 ATATCATGTC
1 ATATCATGTC
75215820 ATATCATGT-
1 ATATCATGTC
75215829 ATATCA
1 ATATCA
75215835 AAATCTCATG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
9 6 0.10
10 37 0.63
11 16 0.27
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.38
Consensus pattern (10 bp):
ATATCATGTC
Found at i:75215806 original size:5 final size:5
Alignment explanation
Indices: 75215758--75215826 Score: 57
Period size: 5 Copynumber: 13.4 Consensus size: 5
75215748 TATAATGAGT
* * * * * *
75215758 ATATC ATGTGC ATCTC ATAAC ATATC ATGTGC ATATC ATGTC ATATC ATGTC
1 ATATC ATAT-C ATATC ATATC ATATC ATAT-C ATATC ATATC ATATC ATATC
*
75215810 ATATC ATGTC ATATC AT
1 ATATC ATATC ATATC AT
75215827 GTATATCAAA
Statistics
Matches: 49, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
5 41 0.84
6 8 0.16
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (5 bp):
ATATC
Found at i:75232791 original size:42 final size:42
Alignment explanation
Indices: 75232739--75232821 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
75232729 ATTTTTTTAC
* *
75232739 ACGAAATCTCATATTGATGCCATATCCCAGATATGGTCTTAT
1 ACGAAATCTCATACTGATGCCATATACCAGATATGGTCTTAT
* * *
75232781 ACGAAGTCTCATACTGATGTCATATACCAGATGTGGTCTTA
1 ACGAAATCTCATACTGATGCCATATACCAGATATGGTCTTA
75232822 CATGTAATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (42 bp):
ACGAAATCTCATACTGATGCCATATACCAGATATGGTCTTAT
Found at i:75241479 original size:28 final size:24
Alignment explanation
Indices: 75241447--75241510 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
75241437 GTGAATCAAA
75241447 TGAAAATATCAGCTAATATGAATTCCAT
1 TGAAAAT-TCAGCT-AT-T-AATTCCAT
*
75241475 TG-AAATTCGGCTATTAATTCCAT
1 TGAAAATTCAGCTATTAATTCCAT
*
75241498 TG-AAATTCGGCTA
1 TGAAAATTCAGCTA
75241511 CCTTGGGTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
23 21 0.60
24 1 0.03
25 2 0.06
26 5 0.14
27 4 0.11
28 2 0.06
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (24 bp):
TGAAAATTCAGCTATTAATTCCAT
Found at i:75241493 original size:23 final size:23
Alignment explanation
Indices: 75241467--75241510 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
75241457 AGCTAATATG
75241467 AATTCCATTGAAATTCGGCTATT
1 AATTCCATTGAAATTCGGCTATT
75241490 AATTCCATTGAAATTCGGCTA
1 AATTCCATTGAAATTCGGCTA
75241511 CCTTGGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (23 bp):
AATTCCATTGAAATTCGGCTATT
Found at i:75242182 original size:22 final size:22
Alignment explanation
Indices: 75242157--75242204 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
75242147 ATCTTAACTA
75242157 AATTCAT-TTACTTTTCTATCTC
1 AATTCATATTACTTTTCTA-CTC
**
75242179 AATTCATATTTTTTTTCTACTC
1 AATTCATATTACTTTTCTACTC
75242201 AATT
1 AATT
75242205 TTCAACCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.25, C:0.19, G:0.00, T:0.56
Consensus pattern (22 bp):
AATTCATATTACTTTTCTACTC
Found at i:75242590 original size:14 final size:14
Alignment explanation
Indices: 75242571--75242605 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
75242561 TGTTTGTTTG
*
75242571 TTTGTTTCTTTTTT
1 TTTGTTTCTTTTTA
75242585 TTTGTTTCTTTTTA
1 TTTGTTTCTTTTTA
75242599 TTTGTTT
1 TTTGTTT
75242606 TATTATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.03, C:0.06, G:0.09, T:0.83
Consensus pattern (14 bp):
TTTGTTTCTTTTTA
Found at i:75242590 original size:18 final size:19
Alignment explanation
Indices: 75242563--75242605 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
75242553 TTCTCCCCTG
*
75242563 TTTGTTTGTTTGTTTCTT-
1 TTTGTTTGTTTCTTTCTTA
*
75242581 TTTTTTTGTTTCTTT-TTA
1 TTTGTTTGTTTCTTTCTTA
75242599 TTTGTTT
1 TTTGTTT
75242606 TATTATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.02, C:0.05, G:0.12, T:0.81
Consensus pattern (19 bp):
TTTGTTTGTTTCTTTCTTA
Found at i:75270599 original size:30 final size:29
Alignment explanation
Indices: 75270505--75270606 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
75270495 TATAGTGAAT
* * *
75270505 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
75270534 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
75270562 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
75270592 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
75270607 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:75274494 original size:24 final size:24
Alignment explanation
Indices: 75274462--75274516 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
75274452 CTTACAATTC
75274462 AGCTCAATAGAGCTTACTGTTTTT
1 AGCTCAATAGAGCTTACTGTTTTT
* *
75274486 AGCTTAATAGAGCTTACTGTTTATC
1 AGCTCAATAGAGCTTACTGTTT-TT
75274511 AGCTCA
1 AGCTCA
75274517 GGAGGAGCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (24 bp):
AGCTCAATAGAGCTTACTGTTTTT
Found at i:75277621 original size:48 final size:47
Alignment explanation
Indices: 75277403--75277762 Score: 197
Period size: 47 Copynumber: 7.7 Consensus size: 47
75277393 ATATATTACC
* * **
75277403 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCT
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCACTCATCT--GTATGCT
* * * *
75277453 GATG-CATGTCCCAGACATGTCCTACACTAGCAC-AACTCT-TA-GCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCACTCA-TCTGTATGCT
** * * * * * *
75277497 GATG-TGTGTCCTAGACACGTCTTAAACTAGCTA-TC-TCTGTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGC-ACTCATCTGT--ATGCT
* * *
75277544 AATG-CATGTCCCAGACATGTCTTACACTGGCACTCATCTCTATGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCACTCATCTGTATGCT
* * * *
75277590 GGTGCCACGTCCCAGACATGGTCTTACACTGGCTA-TCAT-AGTATGGAT
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGC-ACTCATCTGTAT-GCT
* * * *
75277638 GATG-CATGTCCCAGACATGTCTTACACTAGCCCTCGTCTGGATGCT
1 GATGCCATGTCCCAGACATGTCTTACACTGGCACTCATCTGTATGCT
* * * * * *
75277684 GATGCCATGTCCCAGACATGGTCTTACGCTAGCTCTCATAATGT-GGCC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCACTCAT-CTGTATGCT
* **
75277732 GAAG-CATGTCCCAGACACATCTTACACTGGC
1 GATGCCATGTCCCAGACATGTCTTACACTGGC
75277763 GCACAAATCA
Statistics
Matches: 241, Mismatches: 51, Indels: 40
0.73 0.15 0.12
Matches are distributed among these distances:
43 3 0.01
44 28 0.12
45 1 0.00
46 39 0.16
47 89 0.37
48 60 0.25
49 17 0.07
50 4 0.02
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCACTCATCTGTATGCT
Found at i:75277690 original size:94 final size:94
Alignment explanation
Indices: 75277401--75277759 Score: 275
Period size: 94 Copynumber: 3.8 Consensus size: 94
75277391 GGATATATTA
* * * * *
75277401 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATACGCGTGCTGATGCATGTCCC
1 CCGATGCCACGTCCCAGACATGGTCTTACACTAGCTATCATAATATG-G-AC-GATGCATGTCCC
* * *
75277465 AGACATGTCCTACACTAGCA--CAACTC-TTAG
63 AGACATGTCTTACACTAGCACTCATCTCGAT-G
*** * * * * * * *
75277495 CCGATG-TGTGTCCTAGACA-CGTCTTAAACTAGCTATC-T-CTGTCGAGGCCAATGCATGTCCC
1 CCGATGCCACGTCCCAGACATGGTCTTACACTAGCTATCATAATAT---GGACGATGCATGTCCC
* *
75277556 AGACATGTCTTACACTGGCACTCATCTCTATG
63 AGACATGTCTTACACTAGCACTCATCTCGATG
* * * *
75277588 CCGGTGCCACGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGATGATGCATGTCCCAGA
1 CCGATGCCACGTCCCAGACATGGTCTTACACTAGCTATCATAATATGGACGATGCATGTCCCAGA
* * *
75277653 CATGTCTTACACTAGCCCTCGTCTGGATG
66 CATGTCTTACACTAGCACTCATCTCGATG
* * * * * * *
75277682 CTGATGCCATGTCCCAGACATGGTCTTACGCTAGCTCTCATAATGTGGCCGAAGCATGTCCCAGA
1 CCGATGCCACGTCCCAGACATGGTCTTACACTAGCTATCATAATATGGACGATGCATGTCCCAGA
**
75277747 CACATCTTACACT
66 CATGTCTTACACT
75277760 GGCGCACAAA
Statistics
Matches: 208, Mismatches: 47, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
91 31 0.15
92 15 0.07
93 22 0.11
94 122 0.59
95 15 0.07
96 1 0.00
97 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (94 bp):
CCGATGCCACGTCCCAGACATGGTCTTACACTAGCTATCATAATATGGACGATGCATGTCCCAGA
CATGTCTTACACTAGCACTCATCTCGATG
Found at i:75281192 original size:46 final size:46
Alignment explanation
Indices: 75281139--75281313 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
75281129 TATTTGGGCA
75281139 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
75281185 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
75281232 T-CTAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
75281277 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
75281314 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 4 0.04
45 3 0.03
46 92 0.85
47 5 0.05
49 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:75283120 original size:42 final size:41
Alignment explanation
Indices: 75283061--75283213 Score: 153
Period size: 42 Copynumber: 3.7 Consensus size: 41
75283051 TGAGTTATCA
* * * *
75283061 TGTAAGACCATATCTGGGATATGGCGTTGATATAAGATTTCG
1 TGTAAGACCACATCTGGGACATGGCGTCGATATGAGA-TTCG
*
75283103 TGTAAGACCACATCTGGGACATGGCGTCGAAATGAGAATTCG
1 TGTAAGACCACATCTGGGACATGGCGTCGATATGAG-ATTCG
* * * * * * * *
75283145 TATAAAACTATATCTGGGATATGGCATCGATGTGAGATCCG
1 TGTAAGACCACATCTGGGACATGGCGTCGATATGAGATTCG
*
75283186 ATGTAAGACCACGTCTGGGACATGGCGT
1 -TGTAAGACCACATCTGGGACATGGCGT
75283214 TGGCATAGTA
Statistics
Matches: 88, Mismatches: 21, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
41 4 0.05
42 83 0.94
43 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (41 bp):
TGTAAGACCACATCTGGGACATGGCGTCGATATGAGATTCG
Found at i:75291807 original size:25 final size:25
Alignment explanation
Indices: 75291779--75291828 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
75291769 TAATACATAA
*
75291779 AATAAAATCAAAAATTATAGCTCGT
1 AATAAAATAAAAAATTATAGCTCGT
75291804 AATAAAATAAAAAATTATAGCTCGT
1 AATAAAATAAAAAATTATAGCTCGT
75291829 CTTTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (25 bp):
AATAAAATAAAAAATTATAGCTCGT
Found at i:75294572 original size:41 final size:40
Alignment explanation
Indices: 75294527--75294656 Score: 161
Period size: 41 Copynumber: 3.1 Consensus size: 40
75294517 ATGCATTTCA
* *
75294527 TGCCATCATATTTACTTTGGTGTATCCGATGATGCACTATG
1 TGCCAT-ATATTTACTTTGGTTTATTCGATGATGCACTATG
* *
75294568 TGCCAATATATTTACTTCGGTTTATTCGATGATACACTATG
1 TGCC-ATATATTTACTTTGGTTTATTCGATGATGCACTATG
* *
75294609 TGCCAGTATATTTACTTTGGTTTTATTTGATGATGCACTGAGG
1 TGCCA-TATATTTACTTTGG-TTTATTCGATGATGCACT-ATG
75294652 TGCCA
1 TGCCA
75294657 GATTAATGTG
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
40 1 0.01
41 51 0.66
42 18 0.23
43 7 0.09
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (40 bp):
TGCCATATATTTACTTTGGTTTATTCGATGATGCACTATG
Found at i:75297940 original size:39 final size:41
Alignment explanation
Indices: 75297897--75297977 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
75297887 TGATATGAAG
*
75297897 ATAGATTTTTATTCTT-AA-ATATCAGGAAACAAATGTCTT
1 ATAGATTTTTATTCTTGAATAAATCAGGAAACAAATGTCTT
*
75297936 ATAGATTTTTATTCTTGAATAAATCAGGTAACAAATGTCTT
1 ATAGATTTTTATTCTTGAATAAATCAGGAAACAAATGTCTT
75297977 A
1 A
75297978 GATAATAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 16 0.42
40 2 0.05
41 20 0.53
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (41 bp):
ATAGATTTTTATTCTTGAATAAATCAGGAAACAAATGTCTT
Found at i:75306348 original size:31 final size:31
Alignment explanation
Indices: 75306310--75306372 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
75306300 ACTTCATAAG
75306310 TTTTATGTATCGAGATTTTAACACTTAAAAT
1 TTTTATGTATCGAGATTTTAACACTTAAAAT
75306341 TTTTATGTATCGAGATTTTAACACTTAAAAT
1 TTTTATGTATCGAGATTTTAACACTTAAAAT
75306372 T
1 T
75306373 GTTCTATAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (31 bp):
TTTTATGTATCGAGATTTTAACACTTAAAAT
Found at i:75314205 original size:3 final size:3
Alignment explanation
Indices: 75314193--75314243 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
75314183 TGGAAAAAAA
* *
75314193 AAG AAA AAG AAG AAG AAG -AG AAG TAGG AAG -AG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG -AAG AAG AAG AAG AAG AAG AAG
*
75314237 GAG AAG A
1 AAG AAG A
75314244 GGAAAAATAG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.85
4 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:75316113 original size:43 final size:43
Alignment explanation
Indices: 75316023--75316200 Score: 238
Period size: 43 Copynumber: 4.2 Consensus size: 43
75316013 TAAAAAAAAC
** * * *
75316023 TCATTGCATATATATTAAAAACTAGGCAAC-AC--ACCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
75316063 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
*
75316106 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAATAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
* * *
75316149 TCATTGCATACATATTAAAAAA-AGTCAATAGCTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
*
75316191 TCACTGCATG
1 TCATTGCATG
75316201 TGATCAGCAA
Statistics
Matches: 123, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 26 0.21
41 2 0.02
42 25 0.20
43 70 0.57
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.28
Consensus pattern (43 bp):
TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
Found at i:75316192 original size:85 final size:83
Alignment explanation
Indices: 75316023--75316200 Score: 232
Period size: 85 Copynumber: 2.1 Consensus size: 83
75316013 TAAAAAAAAC
** * *
75316023 TCATTGCATATATATTAAAAACTAGGCAACACACCAACAATCATTGCATGCATATTAAAAAATAG
1 TCATTGCATGCATATTAAAAAATAGGCAACACACCAACAATCATTGCATACATATTAAAAAATAG
75316088 TCAACAACTTTCCAACAA
66 TCAACAACTTTCCAACAA
* * *
75316106 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAATAATCATTGCATACATATTAAAAAA
1 TCATTGCATGCATATTAAAAAATAGGCAAC-AC--ACCAACAATCATTGCATACATATTAAAAAA
* *
75316171 -AGTCAATAGCTTTCCAACAA
63 TAGTCAACAACTTTCCAACAA
*
75316191 TCACTGCATG
1 TCATTGCATG
75316201 TGATCAGCAA
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
83 26 0.32
84 2 0.02
85 27 0.33
86 27 0.33
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.28
Consensus pattern (83 bp):
TCATTGCATGCATATTAAAAAATAGGCAACACACCAACAATCATTGCATACATATTAAAAAATAG
TCAACAACTTTCCAACAA
Found at i:75318222 original size:16 final size:16
Alignment explanation
Indices: 75318201--75318235 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
75318191 TGTATAATTT
75318201 AATGGCAGATACAAAC
1 AATGGCAGATACAAAC
*
75318217 AATGGCAGATACACAC
1 AATGGCAGATACAAAC
75318233 AAT
1 AAT
75318236 AAACATCAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.20, G:0.17, T:0.14
Consensus pattern (16 bp):
AATGGCAGATACAAAC
Found at i:75318222 original size:62 final size:63
Alignment explanation
Indices: 75318146--75318533 Score: 539
Period size: 62 Copynumber: 6.2 Consensus size: 63
75318136 TAGGAGCTTG
* **
75318146 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTA-TAATTTAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGCATTAATACAATGGCA
* * **
75318208 GATACAAACAATGGCAGATACACACAATAAACATCAGTTTAATAATGTA-TAATTTAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGCATTAATACAATGGCA
* **
75318270 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTA-TAATTTAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGCATTAATACAATGGCA
* * *
75318332 GATACAAACAATGGCAGATATACACAATAAACATCAATTTGATAATGGCATTCATACAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAAT-GCATTAATACAATGGCA
* * * *
75318396 GATACAAACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTTATACAATGACA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAAT-GCATTAATACAATGGCA
* * * *
75318460 GATACAAACAATGGCAGATACACACAATAAAGATCAGTTTGATAATGACATTCATACAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATG-CATTAATACAATGGCA
75318524 GATACAAACA
1 GATACAAACA
75318534 CATCAAAATC
Statistics
Matches: 308, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
62 166 0.54
63 3 0.01
64 139 0.45
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (63 bp):
GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGCATTAATACAATGGCA
Found at i:75318298 original size:124 final size:125
Alignment explanation
Indices: 75318146--75318533 Score: 598
Period size: 124 Copynumber: 3.1 Consensus size: 125
75318136 TAGGAGCTTG
75318146 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCAGAT
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCAGAT
* * * **
75318211 ACAAACAATGGCAGATACACACAATAAACATCAGTTTAATAATGTA-TAATTTAATGGCA
66 ACAAACAATGGCAGATACACACAATAAACATCAGTTTGATAATGCATTCATACAATGGCA
75318270 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCAGAT
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCAGAT
* *
75318335 ACAAACAATGGCAGATATACACAATAAACATCAATTTGATAATGGCATTCATACAATGGCA
66 ACAAACAATGGCAGATACACACAATAAACATCAGTTTGATAAT-GCATTCATACAATGGCA
* * * * ** *
75318396 GATACAAACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTTATACAATGACAG
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAAT-GTA-TAATTTAATGGCAG
*
75318461 ATACAAACAATGGCAGATACACACAATAAAGATCAGTTTGATAATGACATTCATACAATGGCA
64 ATACAAACAATGGCAGATACACACAATAAACATCAGTTTGATAATG-CATTCATACAATGGCA
75318524 GATACAAACA
1 GATACAAACA
75318534 CATCAAAATC
Statistics
Matches: 242, Mismatches: 17, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
124 105 0.43
125 2 0.01
126 54 0.22
127 3 0.01
128 78 0.32
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (125 bp):
GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCAGAT
ACAAACAATGGCAGATACACACAATAAACATCAGTTTGATAATGCATTCATACAATGGCA
Found at i:75318443 original size:34 final size:34
Alignment explanation
Indices: 75318405--75318506 Score: 90
Period size: 32 Copynumber: 3.1 Consensus size: 34
75318395 AGATACAAAC
75318405 AATGGCAGATATACACAATAAAGATCAGTTTGAT
1 AATGGCAGATATACACAATAAAGATCAGTTTGAT
* * * * *
75318439 AATGGC--ATTTATACAATGACAGATACA----AAC
1 AATGGCAGATATACACAAT-AAAGAT-CAGTTTGAT
*
75318469 AATGGCAGATACACACAATAAAGATCAGTTTGAT
1 AATGGCAGATATACACAATAAAGATCAGTTTGAT
75318503 AATG
1 AATG
75318507 ACATTCATAC
Statistics
Matches: 49, Mismatches: 11, Indels: 16
0.64 0.14 0.21
Matches are distributed among these distances:
30 9 0.18
31 5 0.10
32 17 0.35
33 5 0.10
34 13 0.27
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.25
Consensus pattern (34 bp):
AATGGCAGATATACACAATAAAGATCAGTTTGAT
Found at i:75318472 original size:16 final size:16
Alignment explanation
Indices: 75318451--75318487 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
75318441 TGGCATTTAT
75318451 ACAATGACAGATACAA
1 ACAATGACAGATACAA
* *
75318467 ACAATGGCAGATACAC
1 ACAATGACAGATACAA
75318483 ACAAT
1 ACAAT
75318488 AAAGATCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.22, G:0.14, T:0.14
Consensus pattern (16 bp):
ACAATGACAGATACAA
Found at i:75320892 original size:2 final size:2
Alignment explanation
Indices: 75320885--75320925 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
75320875 AAAATGCCGC
75320885 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
75320926 ATTACTTGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:75324770 original size:16 final size:17
Alignment explanation
Indices: 75324749--75324780 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
75324739 AATTGGTTTA
75324749 AGAAAATT-ATTTAATT
1 AGAAAATTAATTTAATT
75324765 AGAAAATTAATTTAAT
1 AGAAAATTAATTTAAT
75324781 AAATAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
AGAAAATTAATTTAATT
Found at i:75326390 original size:75 final size:74
Alignment explanation
Indices: 75326297--75326546 Score: 331
Period size: 75 Copynumber: 3.3 Consensus size: 74
75326287 GGCACATAAC
*
75326297 TGTCGGT-TAATCCGACTAGCCTTGGGCGCAATTACCATTGGTTTATCCAACTAGATTTGGGCTC
1 TGTCGGTAT-ATCCGACTAGCC-TGGGCGCAATTACCATTGGTTTATCCAACTAGAGTTGGGCTC
75326361 AAAATCATTAT
64 AAAATCATTAT
* * *
75326372 TATCGGTATATCCGACTAGCCCTGAGCACAATTACCATTGGTTTATCCAACTAGAGTTGGGCTCA
1 TGTCGGTATATCCGACTAG-CCTGGGCGCAATTACCATTGGTTTATCCAACTAGAGTTGGGCTCA
75326437 AAATCATTAT
65 AAATCATTAT
* * * *** * *
75326447 TGTCGGTATATCTGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTTA
1 TGTCGGTATATCCGACTAGC-CTGGGCGCAATTACCATTGGTTTATCCAACTAGAGTTGGGCTCA
75326512 AAATCATTAT
65 AAATCATTAT
*
75326522 TGTCGATATATCCGACTAGCACTGG
1 TGTCGGTATATCCGACTAGC-CTGG
75326547 TGCAAATATT
Statistics
Matches: 155, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
74 1 0.01
75 151 0.97
76 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (74 bp):
TGTCGGTATATCCGACTAGCCTGGGCGCAATTACCATTGGTTTATCCAACTAGAGTTGGGCTCAA
AATCATTAT
Found at i:75326500 original size:35 final size:35
Alignment explanation
Indices: 75326461--75326571 Score: 100
Period size: 40 Copynumber: 3.1 Consensus size: 35
75326451 GGTATATCTG
75326461 ACTAGCACTGGGTGCAAATATTGTTGGTTTATCCA
1 ACTAGCACTGGGTGCAAATATTGTTGGTTTATCCA
** * * *
75326496 ACTAG-AGCTGGGCTTAAAATCATTATTGTCGATATATCCG
1 ACTAGCA-CTGGG-TGCAAAT-ATTGTTG--G-TTTATCCA
*
75326536 ACTAGCACT-GGTGCAAATATTGTTGGTTAATCCA
1 ACTAGCACTGGGTGCAAATATTGTTGGTTTATCCA
75326570 AC
1 AC
75326572 CAGAGCTAGG
Statistics
Matches: 58, Mismatches: 11, Indels: 15
0.69 0.13 0.18
Matches are distributed among these distances:
34 8 0.14
35 11 0.19
36 5 0.09
37 12 0.21
38 5 0.09
39 3 0.05
40 13 0.22
41 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (35 bp):
ACTAGCACTGGGTGCAAATATTGTTGGTTTATCCA
Found at i:75326534 original size:40 final size:39
Alignment explanation
Indices: 75326340--75326540 Score: 116
Period size: 40 Copynumber: 5.3 Consensus size: 39
75326330 ACCATTGGTT
** *
75326340 TATCCAACTAGATTTGGGCTCAAAATCATTATTATCGGTA
1 TATCCAACTAGAGCTGGGCTCAAAATCATTATTGTC-GTA
* ** * * * ** *
75326380 TATCCGACTAGCCCTGAG--CACAATTACCATTG--GTT
1 TATCCAACTAGAGCTGGGCTCAAAATCATTATTGTCGTA
*
75326415 TATCCAACTAGAGTTGGGCTCAAAATCATTATTGTCGGTA
1 TATCCAACTAGAGCTGGGCTCAAAATCATTATTGTC-GTA
** * *
75326455 TATCTGACTAGCA-CTGGG-TGC-AAAT-ATTGTTG--GTT
1 TATCCAACTAG-AGCTGGGCT-CAAAATCATTATTGTCGTA
*
75326490 TATCCAACTAGAGCTGGGCTTAAAATCATTATTGTCGATA
1 TATCCAACTAGAGCTGGGCTCAAAATCATTATTGTCG-TA
*
75326530 TATCCGACTAG
1 TATCCAACTAG
75326541 CACTGGTGCA
Statistics
Matches: 115, Mismatches: 32, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
34 1 0.01
35 31 0.27
36 5 0.04
37 16 0.14
38 15 0.13
39 6 0.05
40 40 0.35
41 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (39 bp):
TATCCAACTAGAGCTGGGCTCAAAATCATTATTGTCGTA
Found at i:75326615 original size:74 final size:75
Alignment explanation
Indices: 75326356--75326602 Score: 289
Period size: 75 Copynumber: 3.3 Consensus size: 75
75326346 ACTAGATTTG
* * * ** * *** *
75326356 GGCTCAAAATCATTATTATCGGTATATCCGACTAGCCCTGAGCACAATTACCATTGGTTTATCCA
1 GGCTCAAAATCATTATTGTCGGTATATCCGACTAGCACTGGGTGCAAATATTGTTGGTTAATCCA
* * *
75326421 ACTAGAGTTG
66 ACCAGAGCTA
* *
75326431 GGCTCAAAATCATTATTGTCGGTATATCTGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCA
1 GGCTCAAAATCATTATTGTCGGTATATCCGACTAGCACTGGGTGCAAATATTGTTGGTTAATCCA
* *
75326496 ACTAGAGCTG
66 ACCAGAGCTA
* *
75326506 GGCTTAAAATCATTATTGTCGATATATCCGACTAGCACT-GGTGCAAATATTGTTGGTTAATCCA
1 GGCTCAAAATCATTATTGTCGGTATATCCGACTAGCACTGGGTGCAAATATTGTTGGTTAATCCA
75326570 ACCAGAGCTA
66 ACCAGAGCTA
***
75326580 GGCTCACTTTCATTATTGTCGGT
1 GGCTCAAAATCATTATTGTCGGT
75326603 TAATCCAGCT
Statistics
Matches: 150, Mismatches: 22, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
74 50 0.33
75 100 0.67
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (75 bp):
GGCTCAAAATCATTATTGTCGGTATATCCGACTAGCACTGGGTGCAAATATTGTTGGTTAATCCA
ACCAGAGCTA
Found at i:75326623 original size:150 final size:151
Alignment explanation
Indices: 75326297--75326625 Score: 373
Period size: 150 Copynumber: 2.2 Consensus size: 151
75326287 GGCACATAAC
* * **
75326297 TGTCGGTTAATCCGACTAGCC-TTGGGCGCAATTACCATTGGTTTATCCAACTAGATTTGGGCTC
1 TGTCGGTTAATCCGACTAGCCATTGGGTGCAAATACCATTGGTTTATCCAACTAGAGCTGGGCTC
* * * *
75326361 AAAATCATTATTATCGGTATATCCGACTAGCCCTGAGCACAATTACCATTGGTTTATCCAACTAG
66 AAAATCATTATTATCGATATATCCGACTAGCACTGAGCACAATTACCATTGGTTAATCCAACCAG
* *
75326426 AGTTGGGCTCAAAATCATTAT
131 AGCTAGGCTCAAAATCATTAT
* * ***
75326447 TGTCGG-TATATCTGACTAG-CACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCT
1 TGTCGGTTA-ATCCGACTAGCCATTGGGTGCAAATACCATTGGTTTATCCAACTAGAGCTGGGCT
* * * ***
75326510 TAAAATCATTATTGTCGATATATCCGACTAGCACTGGTGCA-AA-TATTGTTGGTTAATCCAACC
65 CAAAATCATTATTATCGATATATCCGACTAGCACT-GAGCACAATTACCATTGGTTAATCCAACC
***
75326573 AGAGCTAGGCTCACTTTCATTAT
129 AGAGCTAGGCTCAAAATCATTAT
75326596 TGTCGGTTAATCC-AGCTAGCCATTGGGTGC
1 TGTCGGTTAATCCGA-CTAGCCATTGGGTGC
75326626 CACATTATTA
Statistics
Matches: 147, Mismatches: 26, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
148 1 0.01
149 49 0.33
150 93 0.63
151 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (151 bp):
TGTCGGTTAATCCGACTAGCCATTGGGTGCAAATACCATTGGTTTATCCAACTAGAGCTGGGCTC
AAAATCATTATTATCGATATATCCGACTAGCACTGAGCACAATTACCATTGGTTAATCCAACCAG
AGCTAGGCTCAAAATCATTAT
Found at i:75333896 original size:35 final size:34
Alignment explanation
Indices: 75333844--75333961 Score: 87
Period size: 35 Copynumber: 3.2 Consensus size: 34
75333834 ATTTTCCATA
*
75333844 TATCCGACTAGCACTGGGTGCAAATATTGTTGGTT
1 TATCCAACTAG-ACTGGGTGCAAATATTGTTGGTT
* *
75333879 TATCCAACTAGATCTGGGCT-CAAAATCATTATTGTCGGTA
1 TATCCAACTAGA-CTGGG-TGC--AA--A-TATTGTTGGTT
* *
75333919 TATCCGACTAGCGCTGGGTGCAAATATTGTTGG-T
1 TATCCAACTAG-ACTGGGTGCAAATATTGTTGGTT
75333953 TAGTCCAAC
1 TA-TCCAAC
75333962 CAGAGTTGGG
Statistics
Matches: 65, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
34 3 0.05
35 29 0.45
36 2 0.03
37 2 0.03
38 2 0.03
39 2 0.03
40 25 0.38
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.32
Consensus pattern (34 bp):
TATCCAACTAGACTGGGTGCAAATATTGTTGGTT
Found at i:75333900 original size:75 final size:75
Alignment explanation
Indices: 75333797--75333989 Score: 255
Period size: 75 Copynumber: 2.6 Consensus size: 75
75333787 CGCAATTACC
* ** *
75333797 GTTGGTTTATCCAACTAGAGCTAAGCTCAAAATCATTATTTTCCATATATCCGACTAGCACTGGG
1 GTTGGTTTATCCAACTAGATCTGGGCTCAAAATCATTATTGTCCATATATCCGACTAGCACTGGG
75333862 TGCAAATATT
66 TGCAAATATT
** *
75333872 GTTGGTTTATCCAACTAGATCTGGGCTCAAAATCATTATTGTCGGTATATCCGACTAGCGCTGGG
1 GTTGGTTTATCCAACTAGATCTGGGCTCAAAATCATTATTGTCCATATATCCGACTAGCACTGGG
75333937 TGCAAATATT
66 TGCAAATATT
* ***
75333947 GTTGG-TTAGTCCAACCAGAGT-TGGGCTCACTTTCATTATTGTC
1 GTTGGTTTA-TCCAACTAGA-TCTGGGCTCAAAATCATTATTGTC
75333990 GGTTAATCCG
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
74 3 0.03
75 101 0.96
76 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (75 bp):
GTTGGTTTATCCAACTAGATCTGGGCTCAAAATCATTATTGTCCATATATCCGACTAGCACTGGG
TGCAAATATT
Found at i:75333936 original size:40 final size:40
Alignment explanation
Indices: 75333821--75333936 Score: 102
Period size: 40 Copynumber: 3.0 Consensus size: 40
75333811 CTAGAGCTAA
* **
75333821 GCTCAAAATCATTATTTTCCATATATCCGACTAGCACTGG
1 GCTCAAAATCATTATTGTCGGTATATCCGACTAGCACTGG
* * *
75333861 G-TGC--AA--A-TATTGTTGGTTTATCCAACTAG-ATCTGG
1 GCT-CAAAATCATTATTGTCGGTATATCCGACTAGCA-CTGG
*
75333896 GCTCAAAATCATTATTGTCGGTATATCCGACTAGCGCTGG
1 GCTCAAAATCATTATTGTCGGTATATCCGACTAGCACTGG
75333936 G
1 G
75333937 TGCAAATATT
Statistics
Matches: 57, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
34 1 0.02
35 22 0.39
36 2 0.04
37 2 0.04
38 2 0.04
39 2 0.04
40 26 0.46
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (40 bp):
GCTCAAAATCATTATTGTCGGTATATCCGACTAGCACTGG
Found at i:75335662 original size:23 final size:23
Alignment explanation
Indices: 75335627--75335684 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
75335617 CATAAAGGAC
*
75335627 TTCTATTACTAGTACTTTGGTAA
1 TTCTATTACTAGTACTTCGGTAA
* * * *
75335650 TTTTATTATTAGTGCTTCGGTAC
1 TTCTATTACTAGTACTTCGGTAA
75335673 TTCTATTACTAG
1 TTCTATTACTAG
75335685 CACTACAGTG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.50
Consensus pattern (23 bp):
TTCTATTACTAGTACTTCGGTAA
Found at i:75335698 original size:23 final size:23
Alignment explanation
Indices: 75335672--75335716 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
75335662 TGCTTCGGTA
75335672 CTTCTATTACTAGCACTACAGTG
1 CTTCTATTACTAGCACTACAGTG
* *
75335695 CTTCTGTTACTAGCACTTCAGT
1 CTTCTATTACTAGCACTACAGT
75335717 ATGATACTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (23 bp):
CTTCTATTACTAGCACTACAGTG
Found at i:75337353 original size:55 final size:55
Alignment explanation
Indices: 75337284--75337462 Score: 223
Period size: 56 Copynumber: 3.2 Consensus size: 55
75337274 TTATCGCTAA
* * * * *
75337284 AAGGCCATTCATTCAAGAGTTTTCCATAAAAGTTACTCTTTTCAAAATTCACCAT
1 AAGGCCATTCATTCAAGAGTTTGCCACAAAGGCTACTCTTTTCAAAATTCACCAC
* *
75337339 AAGGCCATTCATTCAAGAGTTTGCCACAAAGGCTACTTTTTTTCAAAATTCACCGC
1 AAGGCCATTCATTCAAGAGTTTGCCACAAAGGCTAC-TCTTTTCAAAATTCACCAC
** * * *
75337395 AAGGTTAATCATTCAAGAGTTTGCCACAAAGGCTACACTTTTCAGAATTCACCAC
1 AAGGCCATTCATTCAAGAGTTTGCCACAAAGGCTACTCTTTTCAAAATTCACCAC
*
75337450 AAGGGCGATTCAT
1 AA-GGCCATTCAT
75337463 AAAAGTGCGG
Statistics
Matches: 105, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
55 49 0.47
56 56 0.53
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (55 bp):
AAGGCCATTCATTCAAGAGTTTGCCACAAAGGCTACTCTTTTCAAAATTCACCAC
Found at i:75343022 original size:2 final size:2
Alignment explanation
Indices: 75343015--75343047 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
75343005 AGGAAAACTT
75343015 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
75343048 TTGTGAGGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:75351006 original size:39 final size:39
Alignment explanation
Indices: 75350966--75351220 Score: 343
Period size: 39 Copynumber: 6.5 Consensus size: 39
75350956 GTTCACTTTT
* * *
75350966 AAGCATATATCACATTACACATATAATCACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
75351005 AAGCATATATCACAATACTCATAAAATTACGTAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
75351044 AAGC-TCATATCACAATACTCATATAATCACATAACATTC
1 AAGCAT-ATATCACAATACTCATATAATCACATAACATTC
* *** *
75351083 AAGAATATATTGTAATACTCATATAATTACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
75351122 AAGCATATATCACAATACTCATATAATCATATAAAATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
75351161 AAGCATATATTACAATTA-TCATATAATCACATAATATTC
1 AAGCATATATCACAA-TACTCATATAATCACATAACATTC
75351200 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
75351221 GAAACATGTT
Statistics
Matches: 187, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
38 3 0.02
39 181 0.97
40 3 0.02
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:75358967 original size:16 final size:16
Alignment explanation
Indices: 75358938--75359006 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 16
75358928 AATGTATCTT
**
75358938 GGATTTCTAAATCATG
1 GGATTTCTTTATCATG
75358954 GGATTTCTTTATCAT-
1 GGATTTCTTTATCATG
* * *
75358969 GGATATCTTTGTC-TT
1 GGATTTCTTTATCATG
*
75358984 GGACTTCTTTAT-ATG
1 GGATTTCTTTATCATG
75358999 GG-TTTCTT
1 GGATTTCTT
75359007 GCCATATTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
14 6 0.14
15 23 0.55
16 13 0.31
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.49
Consensus pattern (16 bp):
GGATTTCTTTATCATG
Found at i:75361979 original size:28 final size:28
Alignment explanation
Indices: 75361939--75362030 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
75361929 ATGTACTAGA
75361939 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
75361967 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* *
75361995 ATA-CCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
75362022 ATACCCCTA
1 ATACCCCTA
75362031 GGGTTAATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 25 0.41
28 36 0.59
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:75362009 original size:27 final size:27
Alignment explanation
Indices: 75361943--75362027 Score: 143
Period size: 27 Copynumber: 3.1 Consensus size: 27
75361933 ACTAGAATAC
75361943 CCCTATGTATGCAAAATTACCATTATA
1 CCCTATGTATGCAAAATTACCATTATA
75361970 CCCCTATGTATGCAAAATTACCATTATA
1 -CCCTATGTATGCAAAATTACCATTATA
* *
75361998 CCCTATGTATGCAAAATGACCTTTATA
1 CCCTATGTATGCAAAATTACCATTATA
75362025 CCC
1 CCC
75362028 CTAGGGTTAA
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
27 28 0.51
28 27 0.49
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (27 bp):
CCCTATGTATGCAAAATTACCATTATA
Found at i:75362202 original size:26 final size:27
Alignment explanation
Indices: 75362136--75362224 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 27
75362126 AGGAAGCGTC
75362136 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
75362164 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
75362191 -TGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
75362219 CTGGTG
1 CTGGTG
75362225 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
26 14 0.26
27 17 0.32
28 17 0.32
29 5 0.09
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:75363342 original size:11 final size:10
Alignment explanation
Indices: 75363314--75363347 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
75363304 AGCCTGTAAG
75363314 TATTCTGAAT
1 TATTCTGAAT
*
75363324 TTTTCTGAAT
1 TATTCTGAAT
75363334 ATATTCTGAAT
1 -TATTCTGAAT
75363345 TAT
1 TAT
75363348 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:75369874 original size:28 final size:28
Alignment explanation
Indices: 75369834--75369926 Score: 168
Period size: 28 Copynumber: 3.3 Consensus size: 28
75369824 TTGTACTAGA
75369834 ATACCCCTATGTATACAAAATTACCATT
1 ATACCCCTATGTATACAAAATTACCATT
75369862 ATACCCCTATGTATACAAAATTACCATT
1 ATACCCCTATGTATACAAAATTACCATT
* *
75369890 ATACCCCTATGTATGCAAAATTACCTTT
1 ATACCCCTATGTATACAAAATTACCATT
75369918 ATACCCCTA
1 ATACCCCTA
75369927 GGGTTAATTT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATACAAAATTACCATT
Found at i:75370091 original size:27 final size:27
Alignment explanation
Indices: 75370032--75370121 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
75370022 AGGAAGCATC
75370032 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
75370060 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
75370087 TTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
75370116 CTGGTG
1 CTGGTG
75370122 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 22 0.42
28 25 0.47
29 6 0.11
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:75389844 original size:93 final size:93
Alignment explanation
Indices: 75389732--75389903 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
75389722 CGCCCATAAG
* *
75389732 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
75389797 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
75389825 CGAACTCGGACTCAACTCAACGAGTTCGGACATTGGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
75389890 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
75389904 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:75389900 original size:46 final size:45
Alignment explanation
Indices: 75389725--75389900 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 45
75389715 CGTAACCCGC
* * *
75389725 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCAT
* *
75389771 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTGCAT
*
75389821 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTGGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCAT
*
75389864 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
75389901 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTGCAT
Done.