Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 52 of 284
Found at i:18346381 original size:27 final size:27
Alignment explanation
Indices: 18346311--18346384 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
18346301 AGCATGGCTG
* *
18346311 CCAG-AACAGAT-ATCGTGACAGAGTCA
1 CCAGAAACAGATAAT-GTGGCAGAGCCA
*
18346337 CCAGAAACAGATATTGTGGCAGAGCCA
1 CCAGAAACAGATAATGTGGCAGAGCCA
18346364 CCA-AAATCAGATAATGTGGCA
1 CCAGAAA-CAGATAATGTGGCA
18346385 AACCCACCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 7 0.17
27 33 0.80
28 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAAACAGATAATGTGGCAGAGCCA
Found at i:18346391 original size:27 final size:27
Alignment explanation
Indices: 18346335--18346392 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
18346325 GTGACAGAGT
* * *
18346335 CACCAGAAACAGATATTGTGGCAGAGC
1 CACCAGAAACAGATAATGTGGCAAACC
18346362 CACCA-AAATCAGATAATGTGGCAAACC
1 CACCAGAAA-CAGATAATGTGGCAAACC
18346389 CACC
1 CACC
18346393 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.40, C:0.28, G:0.19, T:0.14
Consensus pattern (27 bp):
CACCAGAAACAGATAATGTGGCAAACC
Found at i:18346597 original size:22 final size:22
Alignment explanation
Indices: 18346549--18346607 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
18346539 GTAAGTACGT
*
18346549 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
18346571 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
18346593 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
18346608 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:18346774 original size:27 final size:26
Alignment explanation
Indices: 18346695--18346777 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
18346685 TCGATCAGTC
* * *
18346695 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
*
18346721 ATACAGATATTGTAGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
18346748 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
18346775 AAC
1 AAC
18346778 GCTTCCTCCG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.16
27 41 0.84
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:18347006 original size:27 final size:27
Alignment explanation
Indices: 18346976--18347171 Score: 203
Period size: 27 Copynumber: 7.3 Consensus size: 27
18346966 GGGGCAAAAT
* * * *
18346976 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
18347003 GGTAGTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
18347030 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* **
18347057 GATAATTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
18347084 AGTAATTCTACCCCATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
18347111 AGTAATTCTACCCTATAGGGGTTTTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
18347138 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
18347165 AGTAATT
1 GGTAATT
18347172 TCACAATCAA
Statistics
Matches: 140, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:18347042 original size:54 final size:54
Alignment explanation
Indices: 18346976--18347171 Score: 230
Period size: 54 Copynumber: 3.6 Consensus size: 54
18346966 GGGGCAAAAT
* * * *
18346976 GGTAATTTTACCCCACAAAGGTATCTCGGTAGTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
18347030 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * ** * *
18347084 AGTAATTCTACCCCATAAGGGTATTTTAGTAATTCTACCCTATAGGGGTTTTTC
1 GGTAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
18347138 GATAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCCACAAGGGTATTTCGGTAATT
18347172 TCACAATCAA
Statistics
Matches: 118, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 118 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:18347120 original size:81 final size:81
Alignment explanation
Indices: 18347021--18347171 Score: 239
Period size: 81 Copynumber: 1.9 Consensus size: 81
18347011 TACCCTACAG
* * *
18347021 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACGGGGGTATTTCAG
1 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAG
18347086 TAATTCTACCCCATAA
66 TAATTCTACCCCATAA
* * * *
18347102 GGGTATTTTAGTAATTCTACCCTATAGGGGTTTTTCGATAATTCTACCCTACAGGGGTATTTCAG
1 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAG
18347167 TAATT
66 TAATT
18347172 TCACAATCAA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 63 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (81 bp):
GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAG
TAATTCTACCCCATAA
Found at i:18347238 original size:53 final size:54
Alignment explanation
Indices: 18347166--18347291 Score: 175
Period size: 54 Copynumber: 2.4 Consensus size: 54
18347156 GGGTATTTCA
* * * *
18347166 GTAATTTCAC-AATCAAGGGTAAAACAGTAATTCTGTAAA-CGAGGGTAAAATG
1 GTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGCTAAAATG
* *
18347218 GTAATTTTACAAATCGAGGGTGAAACGGTAATTCTATAAATCGAGGCTAAAATG
1 GTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGCTAAAATG
*
18347272 GTAATTCTACAAATCGAGGG
1 GTAATTTTACAAATCGAGGG
18347292 CATTTCAGTA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
52 9 0.14
53 25 0.38
54 31 0.48
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (54 bp):
GTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGCTAAAATG
Found at i:18347247 original size:27 final size:27
Alignment explanation
Indices: 18347176--18347291 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
18347166 GTAATTTCAC
* * **
18347176 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTACA
* *
18347203 AA-CGAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTACA
* *
18347229 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTACA
* *
18347256 AATCGAGGCTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTACA
18347283 AATCGAGGG
1 AATCGAGGG
18347292 CATTTCAGTA
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
26 20 0.27
27 53 0.73
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTACA
Found at i:18347328 original size:26 final size:26
Alignment explanation
Indices: 18347271--18347363 Score: 87
Period size: 27 Copynumber: 3.5 Consensus size: 26
18347261 AGGCTAAAAT
* * *
18347271 GGTAATTCTACAAATCGAGGGCATTTC
1 GGTAATTTTAC-AATCGAGGGTACTTC
* *
18347298 AGTAATTTTACAATCGACGGTACTTC
1 GGTAATTTTACAATCGAGGGTACTTC
* * * *
18347324 GGTAATTTTATAAACCGGGGGTACTTT
1 GGTAATTTTA-CAATCGAGGGTACTTC
18347351 GGTAATTTTACAA
1 GGTAATTTTACAA
18347364 CTGGGGGTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
26 23 0.43
27 30 0.57
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.34
Consensus pattern (26 bp):
GGTAATTTTACAATCGAGGGTACTTC
Found at i:18347354 original size:27 final size:26
Alignment explanation
Indices: 18347316--18347384 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
18347306 TACAATCGAC
*
18347316 GGTACTTCGGTAATTTTATAAACCGGG
1 GGTACTTTGGTAATTTTA-AAACCGGG
* *
18347343 GGTACTTTGGTAATTTTACAACTGGG
1 GGTACTTTGGTAATTTTAAAACCGGG
* *
18347369 GGTATTTTAGTAATTT
1 GGTACTTTGGTAATTT
18347385 GGCAAACTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 20 0.54
27 17 0.46
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.41
Consensus pattern (26 bp):
GGTACTTTGGTAATTTTAAAACCGGG
Found at i:18348265 original size:14 final size:14
Alignment explanation
Indices: 18348246--18348281 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
18348236 CTCCCTTAAA
18348246 GAAATTTCGTCCTC
1 GAAATTTCGTCCTC
18348260 GAAATTTCGTCCTC
1 GAAATTTCGTCCTC
18348274 GAAATTTC
1 GAAATTTC
18348282 CATCTAACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (14 bp):
GAAATTTCGTCCTC
Found at i:18349383 original size:6 final size:6
Alignment explanation
Indices: 18349372--18349667 Score: 218
Period size: 6 Copynumber: 48.8 Consensus size: 6
18349362 AACCAAAATG
*
18349372 AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC
* * *
18349420 TGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGTAA-C
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AG-AATC
* *
18349469 AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* * * *
18349517 AGAATT AG-GTGAC AGAATC AAAATC AGAATC A-ATAAC AGAATC AGAATC
1 AGAATC AGAAT--C AGAATC AGAATC AGAATC AGA-ATC AGAATC AGAATC
* * * *
18349566 AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAATT AGGTGAT-
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC
* * * *
18349615 AGAATC AGAATC AGAATT AGTATT AGTAA-C AAAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
*
18349663 TGAAT
1 AGAAT
18349668 GTGAATGCAA
Statistics
Matches: 231, Mismatches: 34, Indels: 50
0.73 0.11 0.16
Matches are distributed among these distances:
5 18 0.08
6 193 0.84
7 15 0.06
8 5 0.02
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:18349459 original size:79 final size:79
Alignment explanation
Indices: 18349372--18349628 Score: 424
Period size: 79 Copynumber: 3.2 Consensus size: 79
18349362 AACCAAAATG
* *
18349372 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACTGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
18349437 CAGAATTAGGTGAC
66 CAGAATTAGGTGAC
18349451 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
18349516 CAGAATTAGGTGAC
66 CAGAATTAGGTGAC
*
18349530 AGAATCAAAATCAGAATCAATAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AG------AATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
*
18349595 CAGAATCAGAATTAGGTGAT
60 CAGAATCAGAATTAGGTGAC
18349615 AGAATCAGAATCAG
1 AGAATCAGAATCAG
18349629 AATTAGTATT
Statistics
Matches: 167, Mismatches: 5, Indels: 12
0.91 0.03 0.07
Matches are distributed among these distances:
79 90 0.54
85 77 0.46
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.21
Consensus pattern (79 bp):
AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
CAGAATTAGGTGAC
Found at i:18349461 original size:85 final size:84
Alignment explanation
Indices: 18349372--18349658 Score: 433
Period size: 85 Copynumber: 3.5 Consensus size: 84
18349362 AACCAAAATG
* *
18349372 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACTGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
18349437 CAGAATTAGGT---G-A-C
66 CAGAATTAGGTGAAGAATC
18349451 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
18349516 CAGAATTAGGTGACAGAATC
66 CAGAATTAGGTGA-AGAATC
* *
18349536 AAAATCAGAATCAATAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
18349601 CAGAATTAGGTGATAGAATC
66 CAGAATTAGGTGA-AGAATC
* ** *
18349621 AGAATCAGAATTAGTATTAGTAA-CAAAATCAGAATCAG
1 AGAATCAGAATCAGTAACAG-AATCAGAATCAGAATCAG
18349659 AATCTGAATG
Statistics
Matches: 190, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
79 74 0.39
83 1 0.01
84 1 0.01
85 112 0.59
86 2 0.01
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.21
Consensus pattern (84 bp):
AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
CAGAATTAGGTGAAGAATC
Found at i:18349849 original size:27 final size:27
Alignment explanation
Indices: 18349787--18349858 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
18349777 CATGGCTGCT
* ** *
18349787 AGAA-CAGATATCGTGATAGAGTCACC
1 AGAATCAGATATTGTGGCAGAGCCACC
18349813 AGAAAT-AGATATTGTGGCAGAGCCACC
1 AG-AATCAGATATTGTGGCAGAGCCACC
*
18349840 AGAATCAGATAATGTGGCA
1 AGAATCAGATATTGTGGCA
18349859 AACCCACCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
26 5 0.13
27 33 0.87
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (27 bp):
AGAATCAGATATTGTGGCAGAGCCACC
Found at i:18349865 original size:27 final size:27
Alignment explanation
Indices: 18349809--18349866 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
18349799 GTGATAGAGT
* * *
18349809 CACCAGAAATAGATATTGTGGCAGAGC
1 CACCAGAAATAGATAATGTGGCAAACC
18349836 CACCAG-AATCAGATAATGTGGCAAACC
1 CACCAGAAAT-AGATAATGTGGCAAACC
18349863 CACC
1 CACC
18349867 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGAAATAGATAATGTGGCAAACC
Found at i:18350071 original size:22 final size:22
Alignment explanation
Indices: 18350023--18350081 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
18350013 GTAAATACGT
*
18350023 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
18350045 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
18350067 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
18350082 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:18350248 original size:27 final size:26
Alignment explanation
Indices: 18350169--18350251 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
18350159 TCGATCGGTC
* * *
18350169 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
18350195 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
18350222 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
18350249 AAC
1 AAC
18350252 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:18350636 original size:27 final size:27
Alignment explanation
Indices: 18350450--18350638 Score: 234
Period size: 27 Copynumber: 7.0 Consensus size: 27
18350440 GGGGCAAAAT
* * ** *
18350450 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
18350477 GGTAATTCTACCCTACAGGGGTACTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
18350504 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
18350531 GATAATTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
18350558 GATAATTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
18350585 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
18350612 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
18350639 AATAATTTCA
Statistics
Matches: 139, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:18350680 original size:27 final size:27
Alignment explanation
Indices: 18350650--18350874 Score: 256
Period size: 27 Copynumber: 8.3 Consensus size: 27
18350640 ATAATTTCAC
* *
18350650 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
18350677 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
18350704 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
18350731 AATCGAGGGTAAAACAGAAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
18350758 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
18350785 AATCGAGGGTAAAACGATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
18350812 AATCGAGGGCGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * **
18350839 AATCGAGGCTACAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
18350866 AATCGAGGG
1 AATCGAGGG
18350875 CATTTCAGTA
Statistics
Matches: 168, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
26 2 0.01
27 164 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.25
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:18350964 original size:26 final size:26
Alignment explanation
Indices: 18350855--18350967 Score: 93
Period size: 26 Copynumber: 4.3 Consensus size: 26
18350845 GGCTACAATG
* * *
18350855 GTAATTCTACAAATCGAGGGCATTTCA
1 GTAATTTTAC-AATCGGGGGTATTTCA
** *
18350882 GTAATTTTACAATCGACGGTATTTCG
1 GTAATTTTACAATCGGGGGTATTTCA
* * *
18350908 GTAATTTTATAAACCGGGGGTACTTT-G
1 GTAATTTTA-CAATCGGGGGTA-TTTCA
* *
18350935 GTAATTTTACAATTGGGGGTATTTTA
1 GTAATTTTACAATCGGGGGTATTTCA
18350961 GTAATTT
1 GTAATTT
18350968 GGTAAACTAA
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
25 3 0.04
26 38 0.54
27 27 0.38
28 3 0.04
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (26 bp):
GTAATTTTACAATCGGGGGTATTTCA
Found at i:18352892 original size:520 final size:518
Alignment explanation
Indices: 18351889--18352849 Score: 1197
Period size: 520 Copynumber: 1.8 Consensus size: 518
18351879 TAATCCGATG
* *
18351889 ACTAACGTAATTGCAACTTCTACAACTTAGATCTAGGCAGCTCTAAATCAGATCTGTACACAACA
1 ACTAACGTAATTGCAACTTCTACAACATAGATCTAGACAGCTCTAAATCAGATCTGTACACAACA
*
18351954 TGAATGAAACTCGATTAAAACCAGCCTTTAGAAACCCCTATAAGGTTTGACCAAAACAAGGATTA
66 TGAATGAAACTCGATTAAAACCAGCCTTTAGAAACCCCTATAAGGTTAGACCAAAACAAGGATTA
* ** * * *
18352019 ATAATTTCAAATTAGATTCAATTTTTGGTCACTTACTTACTCTATCTCGATTTATAATGAAGACA
131 ATAATTTCAAATTAGATACAATTTTTAATCACTTACTTA-TCTATCTCGATATAGAAAGAAGACA
* * *
18352084 CGAATGAGTTTAGTTGTCACTGCTGATCCATGATGTTTGGATTAGGTCCTAATAACACTCAAAAG
195 CGAATGAGTTTAGATGTCACTACTGATCCATGATGTTCGGATTAGGTCCTAATAACACTCAAAAG
* * * *
18352149 CTAGTATAGAATATTCTGCTATGCCACTAGTAACATTTGGCCAAAGAAAAAAATCAAGGGAGGAG
260 CTAGTATAGAATATTCTGCTATGCCACTAGTAACATTTGGACAAAGAAAAAAATAAAGGAAGAAG
* * * ** *
18352214 GAAACTAGATAAGATCTGACATAAAGAAAAATTACTTACTCCACCGGAATGACAGATTCGAAGAA
325 GAAACTAGATAAGATCTGACAGAAAGAAAAACTACTTACTCAACCGGAACAACAAATTCGAAGAA
* * ** * *
18352279 CCAATGAAAAATCTAAGCAGTATCGATGAATTTAGGTAGAATAATTAATCACATGAACAAAATAT
390 CCAATGAAAAATCCAAGCAGTATCGATGAATTCAGCCAGAATAATTAATCACATCAACAAAAGAT
**** * *
18352344 ACCATTTTTTAAACACTAATACACACAAATGTTATATCCACACCTTATTTACGTGAATCTGATTC
455 A-CATAGAATAAACACGAATAAACACAAATGTTATATCCACACCTTATTTACGTGAATCTGATTC
* * *
18352409 ACTAACGTAATTGCAACTTCTACAACATAGATTTAGACAGCTCTAGATCGGATCTGTACACAACA
1 ACTAACGTAATTGCAACTTCTACAACATAGATCTAGACAGCTCTAAATCAGATCTGTACACAACA
* * ** *
18352474 TGAATGAAACTTGATTAAAACTAGCCTTTAGATGCCCCTATAAGGTTCAG-CCAGAACAAGGATT
66 TGAATGAAACTCGATTAAAACCAGCCTTTAGAAACCCCTATAAGGTT-AGACCAAAACAAGGATT
* * *
18352538 AA-CATTGTCAAATTGGATACAATTTTTAATCACTTAC-T-T-TATTTCGATATAGAAAGAAGAC
130 AATAATT-TCAAATTAGATACAATTTTTAATCACTTACTTATCTATCTCGATATAGAAAGAAGAC
* *
18352599 ACGAATGAGTTTCGATGTCACTATTGATCCATGATGTTCGGATTAGGTCCTTCAATCAAAATAAC
194 ACGAATGAGTTTAGATGTCACTACTGATCCATGATGTTCGGATTAGGT-C--C--T---AATAAC
* * *
18352664 ACTCAAAAGTTAGTATAGAATATT-TGACTATGCCAC-AGTAACATTTGGACAAAGTAGAAAATA
251 ACTCAAAAGCTAGTATAGAATATTCTG-CTATGCCACTAGTAACATTTGGACAAAGAAAAAAATA
* *
18352727 AAGGAAGAAGGAAA-TGAGATAAGATTTGATC-GAAAGAAAAACTA-TTAACTCAACCGGAGCAA
315 AAGGAAGAAGGAAACT-AGATAAGATCTGA-CAGAAAGAAAAACTACTT-ACTCAACCGGAACAA
* *
18352789 CAAATTTGAAGCACCAATTGAAAAATCCAAGCAGTA-CAGATGAATTCAGCCAGAATAATTA
377 CAAATTCGAAGAACCAA-TGAAAAATCCAAGCAGTATC-GATGAATTCAGCCAGAATAATTA
18352850 GTAATTCAAC
Statistics
Matches: 379, Mismatches: 46, Indels: 28
0.84 0.10 0.06
Matches are distributed among these distances:
516 61 0.16
517 2 0.01
519 5 0.01
520 144 0.38
521 2 0.01
522 3 0.01
523 86 0.23
524 76 0.20
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.28
Consensus pattern (518 bp):
ACTAACGTAATTGCAACTTCTACAACATAGATCTAGACAGCTCTAAATCAGATCTGTACACAACA
TGAATGAAACTCGATTAAAACCAGCCTTTAGAAACCCCTATAAGGTTAGACCAAAACAAGGATTA
ATAATTTCAAATTAGATACAATTTTTAATCACTTACTTATCTATCTCGATATAGAAAGAAGACAC
GAATGAGTTTAGATGTCACTACTGATCCATGATGTTCGGATTAGGTCCTAATAACACTCAAAAGC
TAGTATAGAATATTCTGCTATGCCACTAGTAACATTTGGACAAAGAAAAAAATAAAGGAAGAAGG
AAACTAGATAAGATCTGACAGAAAGAAAAACTACTTACTCAACCGGAACAACAAATTCGAAGAAC
CAATGAAAAATCCAAGCAGTATCGATGAATTCAGCCAGAATAATTAATCACATCAACAAAAGATA
CATAGAATAAACACGAATAAACACAAATGTTATATCCACACCTTATTTACGTGAATCTGATTC
Found at i:18354964 original size:27 final size:27
Alignment explanation
Indices: 18354934--18355111 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18354924 ATATTGAGTC
* * * *
18354934 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
18354961 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18354988 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
18355016 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
18355043 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
18355070 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18355097 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18355112 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:18355073 original size:82 final size:81
Alignment explanation
Indices: 18354955--18355110 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18354945 TGCTATATAA
* *
18354955 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
18355020 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
18355037 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
18355101 CACTTAGTGC
65 CACTTAGTGC
18355111 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:18363009 original size:27 final size:27
Alignment explanation
Indices: 18362979--18363155 Score: 144
Period size: 27 Copynumber: 6.5 Consensus size: 27
18362969 ATATTGAGCC
* * *
18362979 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCCACATAATCAACT
* * *
18363006 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACATAATCAACT
* *
18363033 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCCACATAAT-CAACT
* ** *
18363061 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAATCAACT
* **
18363088 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CATAATCAACT
* *
18363115 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCCACATAA-TCA-ACT
18363142 CGCACACTTAGTGC
1 CGCACACTTAGTGC
18363156 TGTACAATTT
Statistics
Matches: 122, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.02
27 95 0.78
28 24 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAATCAACT
Found at i:18375103 original size:50 final size:48
Alignment explanation
Indices: 18374977--18375160 Score: 230
Period size: 50 Copynumber: 3.9 Consensus size: 48
18374967 ATGCTAGGAA
*
18374977 GATATGAGAGTTAGTGTAAGACCATGTCTAGGACATGGCATCGG-CTT
1 GATATGAGAGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTT
* * * *
18375024 GATAT--GTGTCAGTGGAAGACCATGTCTGGGACATGGCATCGGCCTC
1 GATATGAGAGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTT
* * * *
18375070 GATATACGAGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTT
1 GATAT--GAGAGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTT
* *
18375120 GATGTGTGAGTCAGTGTAAGACCATGTCTAGGACATGGCAT
1 GATATGAGAGTCAGTGTAAGACCATGTCTAGGACATGGCAT
18375161 TGGCACCTTA
Statistics
Matches: 117, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
45 33 0.28
46 7 0.06
47 5 0.04
48 33 0.28
50 39 0.33
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
GATATGAGAGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTT
Found at i:18380702 original size:21 final size:20
Alignment explanation
Indices: 18380672--18380715 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
18380662 CCATACGGGT
*
18380672 TAATAAATAAAATAATAATAA
1 TAATAAATAAAATAAGAA-AA
* *
18380693 TAATATATAATATAAGAAAA
1 TAATAAATAAAATAAGAAAA
18380713 TAA
1 TAA
18380716 GCAATAAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
TAATAAATAAAATAAGAAAA
Found at i:18382542 original size:33 final size:36
Alignment explanation
Indices: 18382495--18382560 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 36
18382485 ATTCTGTAGT
*
18382495 TAGGGTAATACTG-AAACTGTAGAA-ACTGAGATAG
1 TAGGGTAAAACTGAAAACTGTAGAAGACTGAGATAG
*
18382529 TAGGG-AAAACTGAAAACTTTAGAAGACTGAGA
1 TAGGGTAAAACTGAAAACTGTAGAAGACTGAGA
18382561 CTGTAGCTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 6 0.21
34 15 0.54
35 7 0.25
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (36 bp):
TAGGGTAAAACTGAAAACTGTAGAAGACTGAGATAG
Found at i:18385251 original size:30 final size:30
Alignment explanation
Indices: 18385217--18385317 Score: 73
Period size: 30 Copynumber: 3.2 Consensus size: 30
18385207 GACCTGAATG
18385217 CATGTTTGAATGTTACTATTTACTGCATGC
1 CATGTTTGAATGTTACTATTTACTGCATGC
* * *
18385247 CATG-TT-ATTATTATCTGATAAGGTTGACCTGAATG-
1 CATGTTTGAATGTTA-CT-AT----TT-A-CTGCATGC
*
18385282 CATGTTTGACTGTTACTATTTACTGCATGC
1 CATGTTTGAATGTTACTATTTACTGCATGC
18385312 CATGTT
1 CATGTT
18385318 ATTATTATCT
Statistics
Matches: 54, Mismatches: 6, Indels: 22
0.66 0.07 0.27
Matches are distributed among these distances:
28 5 0.09
29 10 0.19
30 13 0.24
31 2 0.04
34 2 0.04
35 7 0.13
36 10 0.19
37 5 0.09
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.43
Consensus pattern (30 bp):
CATGTTTGAATGTTACTATTTACTGCATGC
Found at i:18385304 original size:65 final size:65
Alignment explanation
Indices: 18385200--18385395 Score: 374
Period size: 65 Copynumber: 3.0 Consensus size: 65
18385190 CCCCTAGGGT
*
18385200 TAAGGTTGACCTGAATGCATGTTTGAATGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
18385265 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
*
18385330 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGAATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
18385395 T
1 T
18385396 GCATGGGACT
Statistics
Matches: 129, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 129 1.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
Found at i:18391127 original size:49 final size:49
Alignment explanation
Indices: 18390902--18391194 Score: 245
Period size: 47 Copynumber: 6.1 Consensus size: 49
18390892 CCATGGCAAC
* *
18390902 ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGAGAG
1 ATGTGATATGTGA-TTACGTATAAGACCATAGCTGGGCTATGGCATC---GAT
* * * * * *
18390955 ATGTGATTATTTGTTTCCGTATAAGACCATATCTGGGATATGGCATTG--
1 ATGTGA-TATGTGATTACGTATAAGACCATAGCTGGGCTATGGCATCGAT
* * * * *
18391003 GTGTGATATATG-CTACTGTATAAGACCATATCTGGGATATGGCATC-A-
1 ATGTGATATGTGATTAC-GTATAAGACCATAGCTGGGCTATGGCATCGAT
* * * * *
18391050 GTGAGATATGTGATTA-ATGTAAGACCATAGCCGGGCTATGGCATCGAT
1 ATGTGATATGTGATTACGTATAAGACCATAGCTGGGCTATGGCATCGAT
*
18391098 ATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGAT
1 ATGTGATATGTGATTACGTATAAGACCATAGCTGGGCTATGGCATCGAT
*
18391147 ATGTGA-A--T-A-T--GTGTAAGACCATAGCTGGGCTATGGCATC-ATT
1 ATGTGATATGTGATTACGTATAAGACCATAGCTGGGCTATGGCATCGA-T
18391189 ATGTGA
1 ATGTGA
18391195 AGATGTGTAA
Statistics
Matches: 210, Mismatches: 22, Indels: 27
0.81 0.08 0.10
Matches are distributed among these distances:
41 1 0.00
42 36 0.17
44 1 0.00
45 1 0.00
46 27 0.13
47 44 0.21
48 22 0.10
49 36 0.17
50 1 0.00
53 36 0.17
54 5 0.02
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (49 bp):
ATGTGATATGTGATTACGTATAAGACCATAGCTGGGCTATGGCATCGAT
Found at i:18391161 original size:42 final size:42
Alignment explanation
Indices: 18391102--18391212 Score: 179
Period size: 42 Copynumber: 2.6 Consensus size: 42
18391092 ATCGATATGT
* *
18391102 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
18391144 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
*
18391186 -ATTATGTGAAGATGTGTAAGACCATAG
1 GA-TATGTGAATATGTGTAAGACCATAG
18391213 TTGAACTATG
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
41 1 0.02
42 64 0.98
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (42 bp):
GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
Found at i:18391192 original size:91 final size:91
Alignment explanation
Indices: 18390976--18391194 Score: 232
Period size: 95 Copynumber: 2.4 Consensus size: 91
18390966 TGTTTCCGTA
* * ** *
18390976 TAAGACCATATCTGGGATATGGCAT--TGGTGTGATATATGCTACTGTATAAGACCATATCTGGG
1 TAAGACCATAGCTGGGCTATGGCATCATTATGTGATATATGCTACTGTATAAGACCATAGCTGGG
*
18391039 ATATGGCATCAGTGAGATATGTGATTAATG
66 ATATGGCATC----AGATATGTGAATAATG
* * * *
18391069 TAAGACCATAGCCGGGCTATGGCATCGA-TATGTGATATGTGATTAC-GTGTAAGACCATAGCTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATTATGTGATATATG-CTACTGTATAAGACCATAGCTG
* *
18391132 GGCTATGGCATC-GATATGTGAATATGTG
64 GGATATGGCATCAGATATGTGAATA-ATG
18391160 TAAGACCATAGCTGGGCTATGGCATCATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCATTATGTGA
18391195 AGATGTGTAA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
90 12 0.11
91 34 0.32
93 22 0.21
95 36 0.34
96 3 0.03
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (91 bp):
TAAGACCATAGCTGGGCTATGGCATCATTATGTGATATATGCTACTGTATAAGACCATAGCTGGG
ATATGGCATCAGATATGTGAATAATG
Found at i:18394460 original size:59 final size:59
Alignment explanation
Indices: 18394368--18394484 Score: 216
Period size: 59 Copynumber: 2.0 Consensus size: 59
18394358 GATGAGCTAG
*
18394368 AGGACATTACTAACAATGTCCCTCCCCCTCACGAGGACCCACCCCCCCCAACACCACCC
1 AGGACATTACTAACAATGTCCCTCCCCCTCACGAGGACCCACCCCCACCAACACCACCC
*
18394427 AGGACATTACTAACAATGTCCCTCCCCCTCACGAGGACCCACCCCCACCACCACCACC
1 AGGACATTACTAACAATGTCCCTCCCCCTCACGAGGACCCACCCCCACCAACACCACC
18394485 GAGTTACCAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.27, C:0.50, G:0.10, T:0.12
Consensus pattern (59 bp):
AGGACATTACTAACAATGTCCCTCCCCCTCACGAGGACCCACCCCCACCAACACCACCC
Found at i:18396462 original size:46 final size:46
Alignment explanation
Indices: 18396395--18396570 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
18396385 TATTTGGGCA
*
18396395 TCCGAACTCGTTGAATTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
18396441 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
* * *
18396486 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* * *
18396534 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGG
18396571 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.05
45 1 0.01
46 61 0.55
47 28 0.25
48 1 0.01
50 4 0.04
51 5 0.05
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:18396550 original size:93 final size:93
Alignment explanation
Indices: 18396391--18396562 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
18396381 AGGATATTTG
* *
18396391 GGCATCCGAACTCGTTGAATTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAATTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
18396456 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
18396484 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAATTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
18396549 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
18396563 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAATTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:18397713 original size:100 final size:100
Alignment explanation
Indices: 18397535--18397798 Score: 485
Period size: 100 Copynumber: 2.6 Consensus size: 100
18397525 ACAGAAATTA
*
18397535 CAGCTAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGCTATTGTGGCTAGGCCACCAGAA
1 CAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGCTATTGTGGCTAGGCCACCAGAA
18397600 CAGATATATATATATGTGGAGAAGCCACCAGATTG
66 CAGATATATATATATGTGGAGAAGCCACCAGATTG
18397635 CAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGCTATTGTGGCTAGGCCACCAGAA
1 CAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGCTATTGTGGCTAGGCCACCAGAA
18397700 CAGATATATATATATGTGGAGAAGCCACCAGATTG
66 CAGATATATATATATGTGGAGAAGCCACCAGATTG
* *
18397735 CAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGA-ACAGATATATGTGGCGAGGCCACCAGA
1 CAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGCTAT-TGTGGCTAGGCCACCAGA
18397799 TTGCAGCAAG
Statistics
Matches: 160, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
99 7 0.04
100 153 0.96
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (100 bp):
CAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGCTATTGTGGCTAGGCCACCAGAA
CAGATATATATATATGTGGAGAAGCCACCAGATTG
Found at i:18397795 original size:27 final size:26
Alignment explanation
Indices: 18397747--18397798 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
18397737 GCGAGGCTGC
*
18397747 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
18397773 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
18397799 TTGCAGCAAG
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:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:18398778 original size:27 final size:27
Alignment explanation
Indices: 18398422--18398789 Score: 452
Period size: 27 Copynumber: 13.6 Consensus size: 27
18398412 GGGGCAAAAT
* * *
18398422 AGTAATTTTACCCCAC-GAGGGTATCTC
1 AGTAATTCTACCCTACAG-GGGTATTTC
*
18398449 GGTAATTCTACCCTACAGGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTC
* *
18398476 AGTATTTCTACCCTACAAGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTC
* *
18398503 GGTAATTCTACCCTATAGGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTC
* *
18398530 AGTAATTCTACCATATAGGGGTATTT-
1 AGTAATTCTACCCTACAGGGGTATTTC
* *
18398556 TGTTAATTCTACCTTACAGGGGTATTTC
1 AG-TAATTCTACCCTACAGGGGTATTTC
* *
18398584 AATAATTTTACCCTACAGGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTC
* * *
18398611 GGTAATTCTACCTTACAGGGATATTTC
1 AGTAATTCTACCCTACAGGGGTATTTC
18398638 AGTAATTCTACCCTACAGGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTC
* *
18398665 GGTAATTCTACCTTACAGGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTC
* *
18398692 AGTAATTCTATCTTACAGGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTC
* *
18398719 AGTAGTTCTACCCTACAGGGGTACTTC
1 AGTAATTCTACCCTACAGGGGTATTTC
* *
18398746 GGTAATTCTACCTTACAGGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTC
* * *
18398773 AATAATGCTAGCCTACA
1 AGTAATTCTACCCTACA
18398790 AATATGTGAT
Statistics
Matches: 293, Mismatches: 45, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.00
27 291 0.99
28 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
AGTAATTCTACCCTACAGGGGTATTTC
Found at i:18403488 original size:53 final size:54
Alignment explanation
Indices: 18403404--18403599 Score: 171
Period size: 53 Copynumber: 3.6 Consensus size: 54
18403394 TCCTTTTTTA
* * ** * *
18403404 AACTTACCATTTCCATATCTTGACATTGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
18403457 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGAT-CTTAGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT-GCCTTATAG
** * * * * * * *
18403511 TAGTTTATCAATGCCATGTCTTGACATGGTCTTGCATGATCTCCTTACCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
18403566 AACTTACCAATGCCATGCCTTGGCATAGTCTTAC
1 AACTTACCAATGCCATGCCTTGACATGGTCTTAC
18403600 CAATGCCATG
Statistics
Matches: 111, Mismatches: 28, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
52 3 0.03
53 40 0.36
54 28 0.25
55 37 0.33
56 3 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:18403599 original size:27 final size:27
Alignment explanation
Indices: 18403568--18403625 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
18403558 CCTTGTAGAA
18403568 CTTACCAATGCCATGCCTTGGCATAGT
1 CTTACCAATGCCATGCCTTGGCATAGT
* *
18403595 CTTACCAATGCCATGCCTTGGTATGGT
1 CTTACCAATGCCATGCCTTGGCATAGT
18403622 CTTA
1 CTTA
18403626 TTTGGTATCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.33
Consensus pattern (27 bp):
CTTACCAATGCCATGCCTTGGCATAGT
Found at i:18408450 original size:12 final size:12
Alignment explanation
Indices: 18408435--18408460 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18408425 TCTATTCTCC
18408435 TCTCTCACTTTT
1 TCTCTCACTTTT
18408447 TCTCTCACTTTT
1 TCTCTCACTTTT
18408459 TC
1 TC
18408461 CATCCCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.35, G:0.00, T:0.58
Consensus pattern (12 bp):
TCTCTCACTTTT
Found at i:18422168 original size:29 final size:29
Alignment explanation
Indices: 18422105--18422172 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
18422095 TAATCAACCG
18422105 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
18422134 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
18422163 CGCACACTTA
1 CGCACACTTA
18422173 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:18422285 original size:174 final size:174
Alignment explanation
Indices: 18421994--18422321 Score: 584
Period size: 174 Copynumber: 1.9 Consensus size: 174
18421984 AACTCAAGGT
* ** *
18421994 ACTTACCTTTTCCGCTGTCCAAAGTTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCAACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
18422059 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
18422124 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
18422168 ACTTACCTTTTCCGCTGTCCAAAATCAACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCAACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
18422233 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
18422298 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
18422322 TGTACAATTT
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 146 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCAACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:18422313 original size:29 final size:30
Alignment explanation
Indices: 18422274--18422352 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
18422264 CTTAATAATC
18422274 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
18422304 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
18422333 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
18422353 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:18429960 original size:49 final size:49
Alignment explanation
Indices: 18429892--18430136 Score: 292
Period size: 49 Copynumber: 4.9 Consensus size: 49
18429882 TAGCCAAAGC
* * * *
18429892 TATCTGGTACGCATAGTAGCCTGCAATTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * *
18429941 TATCCAGTACACATAGTAGCCTGCACTTAGTACTACCCACGTGACCTAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* * * * * *
18429991 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* * *
18430042 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* *
18430091 TATCCGGTACACGTAGTAGCCTACACTTAGTACTACACATGTGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
18430137 TCACAGTAGA
Statistics
Matches: 164, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 81 0.49
50 45 0.27
51 38 0.23
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:18430077 original size:101 final size:98
Alignment explanation
Indices: 18429905--18430136 Score: 302
Period size: 100 Copynumber: 2.3 Consensus size: 98
18429895 CTGGTACGCA
* *
18429905 TAGTAGCCTGCAATTAGTACTACACATGCGACCAATTATCCAGTACACATAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCAGTACACATAGTAGCCTGCACTTA
* * *
18429970 GTACTACCCACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACC-AACCATCCGATACACG
* * ** *
18430004 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCAGTACACATAGTAGCCTGCACT
* ** *
18430069 TAGTACTACACATGCGACCAATTATCCGGTACACG
64 TAGTACTACACACGCGACCAACCATCCGATACACG
*
18430104 TAGTAGCCTACACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
18430137 TCACAGTAGA
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 29 0.25
100 44 0.39
101 41 0.36
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCAGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCCGATACACG
Found at i:18431625 original size:34 final size:34
Alignment explanation
Indices: 18431540--18431625 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
18431530 GATTCTTTGT
*
18431540 CTGCATACTG-TACTGATATGGGCTAAGGCCCAGA
1 CTGC-TACTGTTACTGAAATGGGCTAAGGCCCAGA
* ** * * *
18431574 CCGCTTTTATCATTGAAATGGGCTAAGGCCCAGA
1 CTGCTACTGTTACTGAAATGGGCTAAGGCCCAGA
18431608 CTGCTACTGTTACTGAAA
1 CTGCTACTGTTACTGAAA
18431626 AGGGGTTAAT
Statistics
Matches: 38, Mismatches: 13, Indels: 2
0.72 0.25 0.04
Matches are distributed among these distances:
33 2 0.05
34 36 0.95
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (34 bp):
CTGCTACTGTTACTGAAATGGGCTAAGGCCCAGA
Found at i:18433522 original size:21 final size:20
Alignment explanation
Indices: 18433496--18433535 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18433486 GCGTGATGTC
*
18433496 CTCTGTATTTTAAAAAATTTT
1 CTCTGT-TTTCAAAAAATTTT
*
18433517 CTCTGTTTTCCAAAAATTT
1 CTCTGTTTTCAAAAAATTT
18433536 CCTCAGTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.30, C:0.15, G:0.05, T:0.50
Consensus pattern (20 bp):
CTCTGTTTTCAAAAAATTTT
Found at i:18442222 original size:145 final size:145
Alignment explanation
Indices: 18441959--18442247 Score: 578
Period size: 145 Copynumber: 2.0 Consensus size: 145
18441949 TATAACTCGT
18441959 CTTACCTACCTTACTTTACCTTGATATTCTCTTTAAATTTTCCCGTTGAACCACTTGGAGTACTA
1 CTTACCTACCTTACTTTACCTTGATATTCTCTTTAAATTTTCCCGTTGAACCACTTGGAGTACTA
18442024 AGGATACACGGGTACCGTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTTTTGAAAC
66 AGGATACACGGGTACCGTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTTTTGAAAC
18442089 TTACCATTGCCATGC
131 TTACCATTGCCATGC
18442104 CTTACCTACCTTACTTTACCTTGATATTCTCTTTAAATTTTCCCGTTGAACCACTTGGAGTACTA
1 CTTACCTACCTTACTTTACCTTGATATTCTCTTTAAATTTTCCCGTTGAACCACTTGGAGTACTA
18442169 AGGATACACGGGTACCGTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTTTTGAAAC
66 AGGATACACGGGTACCGTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTTTTGAAAC
18442234 TTACCATTGCCATG
131 TTACCATTGCCATG
18442248 TCTTGACATG
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 144 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (145 bp):
CTTACCTACCTTACTTTACCTTGATATTCTCTTTAAATTTTCCCGTTGAACCACTTGGAGTACTA
AGGATACACGGGTACCGTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTTTTGAAAC
TTACCATTGCCATGC
Found at i:18442258 original size:49 final size:52
Alignment explanation
Indices: 18442186--18442330 Score: 165
Period size: 49 Copynumber: 2.8 Consensus size: 52
18442176 ACGGGTACCG
*
18442186 TACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTT-TT-GAAA-CT
1 TACCATTGCCATGACTTGACATGGTCTTACATGGTATCCTTCTTAGAAACCT
* * *
18442235 TACCATTGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCT
1 TACCATTGCCATGACTTGACATGGTCTTACATGGTATCCTT--CTTAGAAACCT
*
18442289 TACCAATTGCCAT-ACCTT-AGCATGGTATTACATGGTATCCTT
1 TACC-ATTGCCATGA-CTTGA-CATGGTCTTACATGGTATCCTT
18442331 GAACCCTAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
49 37 0.46
52 2 0.03
53 4 0.05
54 7 0.09
55 30 0.38
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.37
Consensus pattern (52 bp):
TACCATTGCCATGACTTGACATGGTCTTACATGGTATCCTTCTTAGAAACCT
Found at i:18451346 original size:15 final size:15
Alignment explanation
Indices: 18451326--18451381 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
18451316 GTATCTTGGG
18451326 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
18451341 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
18451356 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
18451371 TTTCTTTATTC
1 TTTCTTTATTC
18451382 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:18455774 original size:16 final size:16
Alignment explanation
Indices: 18455755--18455785 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18455745 CTTCTTCACT
18455755 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
18455771 TACTTACTTACTTAA
1 TACTCACTTACTTAA
18455786 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:18455791 original size:20 final size:20
Alignment explanation
Indices: 18455752--18455791 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18455742 AAACTTCTTC
* *
18455752 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
18455772 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
18455792 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:18456171 original size:55 final size:53
Alignment explanation
Indices: 18455981--18456236 Score: 222
Period size: 55 Copynumber: 4.8 Consensus size: 53
18455971 ACACGGGTAC
* * * * *
18455981 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
18456030 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
18456083 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* ***
18456138 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
** * *
18456191 CCTTACCAATTGCCATACCTT-AGCATGGTATTACATGGTATCCTTG
1 -CTTACCAA-TGCCATGTCTTGA-CATGGTCTTACATGGGATCCTTG
18456237 AACCCTAATG
Statistics
Matches: 173, Mismatches: 22, Indels: 18
0.81 0.10 0.08
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 11 0.06
55 70 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:18456172 original size:108 final size:110
Alignment explanation
Indices: 18456028--18456228 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
18456018 ATCCTTTTGA
* *
18456028 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
* * *
18456091 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATACCTTAGCATGGTATTACATGGGACCTTTGCCTTATAGT
* * *
18456136 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
18456201 TGCCATACCTTAGCATGGTATTACATGG
66 TGCCATACCTTAGCATGGTATTACATGG
18456229 TATCCTTGAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.60
109 7 0.09
110 25 0.30
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATACCTTAGCATGGTATTACATGGGACCTTTGCCTTATAGT
Found at i:18457082 original size:49 final size:49
Alignment explanation
Indices: 18457006--18457102 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
18456996 AAAGCTTGAA
* *
18457006 ACAAACCCTAGCTATGGAGAACCCTTGAAATTTCATCCTAATGAAGAAG
1 ACAAACCCTAGCTATAGAGAAACCTTGAAATTTCATCCTAATGAAGAAG
* *
18457055 ACAAACCCTAGCTATAGAGAAATCTTGAAATTTCGTCCTAATGAAGAA
1 ACAAACCCTAGCTATAGAGAAACCTTGAAATTTCATCCTAATGAAGAA
18457103 TATGGACAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (49 bp):
ACAAACCCTAGCTATAGAGAAACCTTGAAATTTCATCCTAATGAAGAAG
Found at i:18473487 original size:20 final size:21
Alignment explanation
Indices: 18473449--18473487 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
18473439 TTTACAACAC
18473449 ATTTATTCATAAAAATTTAGA
1 ATTTATTCATAAAAATTTAGA
* *
18473470 ATTT-TTCATCAAATTTTA
1 ATTTATTCATAAAAATTTA
18473488 CAACTTTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (21 bp):
ATTTATTCATAAAAATTTAGA
Found at i:18495180 original size:15 final size:15
Alignment explanation
Indices: 18495160--18495189 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18495150 CAACACTTGT
18495160 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
18495175 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
18495190 AATACATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:18495890 original size:27 final size:27
Alignment explanation
Indices: 18495856--18495916 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
18495846 CTTAGTTCAA
18495856 TTCGGCAAAAGCCGAAATGCCGAAATT
1 TTCGGCAAAAGCCGAAATGCCGAAATT
*
18495883 TTTGGCAAAAGCCGAAATGCCGAAATT
1 TTCGGCAAAAGCCGAAATGCCGAAATT
18495910 TTCGGCA
1 TTCGGCA
18495917 TTTCATGGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (27 bp):
TTCGGCAAAAGCCGAAATGCCGAAATT
Found at i:18502840 original size:37 final size:38
Alignment explanation
Indices: 18502790--18502872 Score: 107
Period size: 37 Copynumber: 2.2 Consensus size: 38
18502780 ATTTGATGTG
* * *
18502790 TATTCGGGTTAAATCCTGCAAGCT-TCGTGCTGGTATTA
1 TATTCGGGATAAATCCCGC-AGCTCTAGTGCTGGTATTA
*
18502828 TA-TCGGGATAAATCCCGCAGGTCTAGTGCTGGTATTA
1 TATTCGGGATAAATCCCGCAGCTCTAGTGCTGGTATTA
18502865 TATTCGGG
1 TATTCGGG
18502873 CCTTCGTGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 3 0.08
37 29 0.74
38 7 0.18
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (38 bp):
TATTCGGGATAAATCCCGCAGCTCTAGTGCTGGTATTA
Found at i:18502918 original size:43 final size:43
Alignment explanation
Indices: 18502865--18503075 Score: 341
Period size: 43 Copynumber: 4.9 Consensus size: 43
18502855 GCTGGTATTA
18502865 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
18502908 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * * *
18502951 TATTCGGGCCTGCGTGCCTAGCAGACTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
18502994 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
18503037 TATTCAGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
18503076 AATGATATGT
Statistics
Matches: 155, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 155 1.00
ACGTcount: A:0.13, C:0.24, G:0.34, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:18508672 original size:23 final size:23
Alignment explanation
Indices: 18508646--18508720 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
18508636 CGAATGGCCA
18508646 ATGTGATGAAAGTGAACATGTAT
1 ATGTGATGAAAGTGAACATGTAT
* *
18508669 ATGTG-TGATAAG-G-CCGAATGGCCA-
1 ATGTGATGA-AAGTGAAC--AT-G-TAT
18508693 ATGTGATGAAAGTGAACATGTAT
1 ATGTGATGAAAGTGAACATGTAT
18508716 ATGTG
1 ATGTG
18508721 TGATAAAGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
21 1 0.03
22 5 0.13
23 16 0.41
24 11 0.28
25 5 0.13
26 1 0.03
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.28
Consensus pattern (23 bp):
ATGTGATGAAAGTGAACATGTAT
Found at i:18508676 original size:25 final size:24
Alignment explanation
Indices: 18508647--18508728 Score: 62
Period size: 25 Copynumber: 3.4 Consensus size: 24
18508637 GAATGGCCAA
18508647 TGTGATGAAAGTGAACATGTATATG
1 TGTGAT-AAAGTGAACATGTATATG
* * *** *
18508672 TGTGATAAGGCCG-A-ATGGCCA-A
1 TGTGATAAAG-TGAACATGTATATG
18508694 TGTGATGAAAGTGAACATGTATATG
1 TGTGAT-AAAGTGAACATGTATATG
18508719 TGTGATAAAG
1 TGTGATAAAG
18508729 CCGAATGGCC
Statistics
Matches: 40, Mismatches: 12, Indels: 11
0.63 0.19 0.17
Matches are distributed among these distances:
22 7 0.17
23 8 0.20
24 12 0.30
25 13 0.32
ACGTcount: A:0.35, C:0.07, G:0.29, T:0.28
Consensus pattern (24 bp):
TGTGATAAAGTGAACATGTATATG
Found at i:18508697 original size:47 final size:47
Alignment explanation
Indices: 18508616--18509009 Score: 610
Period size: 47 Copynumber: 8.4 Consensus size: 47
18508606 AATGTGAAAG
*
18508616 TGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
18508664 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
18508711 TGTATATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTGAATA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
18508758 GGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
18508805 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
18508852 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * *
18508899 TGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * *
18508946 TGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-A
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
**
18508992 GTGTATAAATGTGATAAG
1 -TGTATATGTGTGATAAG
18509010 TCCCGAAGGG
Statistics
Matches: 323, Mismatches: 22, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 310 0.96
48 12 0.04
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
Found at i:18508743 original size:24 final size:24
Alignment explanation
Indices: 18508716--18508791 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
18508706 GAACATGTAT
18508716 ATGTGTGATAAAGCCGAATGGCCA
1 ATGTGTGATAAAGCCGAATGGCCA
* ***
18508740 A--TGTGATGAAAG-TGAATAGGTGT
1 ATGTGTGAT-AAAGCCGAAT-GGCCA
*
18508763 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAAGCCGAATGGCCA
18508787 ATGTG
1 ATGTG
18508792 ATGAAAGTGA
Statistics
Matches: 38, Mismatches: 9, Indels: 10
0.67 0.16 0.18
Matches are distributed among these distances:
22 10 0.26
23 7 0.18
24 11 0.29
25 10 0.26
ACGTcount: A:0.32, C:0.11, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAAGCCGAATGGCCA
Found at i:18508861 original size:23 final size:23
Alignment explanation
Indices: 18508787--18508861 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
18508777 CGAATGGCCA
18508787 ATGTGATGAAAGTGAACATGTAT
1 ATGTGATGAAAGTGAACATGTAT
* *
18508810 ATGTG-TGATAAG-G-CCGAATGGCCA-
1 ATGTGATGA-AAGTGAAC--AT-G-TAT
18508834 ATGTGATGAAAGTGAACATGTAT
1 ATGTGATGAAAGTGAACATGTAT
18508857 ATGTG
1 ATGTG
18508862 TGATAAGGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
21 1 0.03
22 5 0.13
23 16 0.41
24 11 0.28
25 5 0.13
26 1 0.03
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.28
Consensus pattern (23 bp):
ATGTGATGAAAGTGAACATGTAT
Found at i:18509184 original size:37 final size:37
Alignment explanation
Indices: 18509128--18509207 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
18509118 CCGGGCTCTA
* * * *
18509128 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCTGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
18509165 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
18509202 AAGACT
1 AAGACT
18509208 TCGTAATAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:18523400 original size:46 final size:46
Alignment explanation
Indices: 18523333--18523498 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 46
18523323 GCCCATAAGC
* *
18523333 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCACAAGT
* * *
18523379 GAACTCAGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACATCTCAC----
1 GAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTCGCATC-CACAAGT
* *
18523426 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCACAAGT
*
18523472 GAACTCGGATTCAACTCAACGAGTTCG
1 GAACTCGGACTCAACTCAACGAGTTCG
18523499 AATGCTCAAC
Statistics
Matches: 99, Mismatches: 10, Indels: 22
0.76 0.08 0.17
Matches are distributed among these distances:
42 4 0.04
43 4 0.04
44 2 0.02
46 51 0.52
47 26 0.26
49 2 0.02
50 4 0.04
51 6 0.06
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCACAAGT
Found at i:18523519 original size:46 final size:46
Alignment explanation
Indices: 18523325--18523511 Score: 136
Period size: 46 Copynumber: 4.1 Consensus size: 46
18523315 TGTAACCCGC
* * * * * *
18523325 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATGCGCAA
* * *
18523371 CCACAAGTGAACTCAGACTCAACTCAACGAGTTC--AGATGC-CTAGTTA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATGCGC-A---A
* * * *
18523418 -CATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATGCGCAA
* *
18523464 CCATAAGTGAACTCGGATTCAACTCAACGAGTTC-GA-ATGCTCAA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATGCGCAA
18523508 CCAT
1 CCAT
18523512 CCTAGTGACA
Statistics
Matches: 108, Mismatches: 22, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
43 1 0.01
44 12 0.11
45 4 0.04
46 57 0.53
47 27 0.25
48 1 0.01
49 5 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATGCGCAA
Found at i:18535944 original size:37 final size:36
Alignment explanation
Indices: 18535894--18536065 Score: 148
Period size: 37 Copynumber: 4.7 Consensus size: 36
18535884 CAATTGCTTG
* *
18535894 TAAGAGCTAATCCACCCGATAACACTGCATATGGTCA
1 TAAGAGCTAATCCACCCGATAACAC-GCAGATGCTCA
* *
18535931 TAAGAGCTAATCCA-ACGAATAACACGCTAGATGCTTA
1 TAAGAGCTAATCCACCCG-ATAACACGC-AGATGCTCA
* * * ** *
18535968 TAAAAACTAATACACCTTATAACACACCAGATGCTCA
1 TAAGAGCTAATCCACCCGATAACAC-GCAGATGCTCA
* * *
18536005 TAAAAGCTAATCCACCAGATTACACGCCAGATGCTCA
1 TAAGAGCTAATCCACCCGATAACACG-CAGATGCTCA
* * *
18536042 TAAGAGCTAGTCCAACCGAAAACA
1 TAAGAGCTAATCCACCCGATAACA
18536066 TGCTGAAACA
Statistics
Matches: 106, Mismatches: 24, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
36 4 0.04
37 101 0.95
38 1 0.01
ACGTcount: A:0.41, C:0.26, G:0.13, T:0.20
Consensus pattern (36 bp):
TAAGAGCTAATCCACCCGATAACACGCAGATGCTCA
Found at i:18539848 original size:7 final size:7
Alignment explanation
Indices: 18539836--18539869 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
18539826 ATGAAAGAAA
18539836 AGAATGT
1 AGAATGT
18539843 AGAATGT
1 AGAATGT
18539850 AGAATGT
1 AGAATGT
18539857 AGAATGT
1 AGAATGT
18539864 AGAATG
1 AGAATG
18539870 AGAGATGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.26
Consensus pattern (7 bp):
AGAATGT
Found at i:18539861 original size:21 final size:21
Alignment explanation
Indices: 18539836--18539877 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
18539826 ATGAAAGAAA
18539836 AGAATGTAGAATGTAGA-ATGT
1 AGAATGTAGAATG-AGAGATGT
18539857 AGAATGTAGAATGAGAGATGT
1 AGAATGTAGAATGAGAGATGT
18539878 GTTATGAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.26
Consensus pattern (21 bp):
AGAATGTAGAATGAGAGATGT
Found at i:18542124 original size:61 final size:61
Alignment explanation
Indices: 18542026--18542145 Score: 222
Period size: 61 Copynumber: 2.0 Consensus size: 61
18542016 ATATATACAA
*
18542026 CAGGATTACCAGTCCAGGCTAAATCCTGTCTCTAATATATATATACTCAATAAAGCTTAGT
1 CAGGATTACCAGTCCAGGCTAAATCCTGTCTCCAATATATATATACTCAATAAAGCTTAGT
*
18542087 CAGGATTACCAGTCCAGGCTAAATCCTGTCTCCAATATATATATACTCAATAGAGCTTA
1 CAGGATTACCAGTCCAGGCTAAATCCTGTCTCCAATATATATATACTCAATAAAGCTTA
18542146 TACTACAAGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (61 bp):
CAGGATTACCAGTCCAGGCTAAATCCTGTCTCCAATATATATATACTCAATAAAGCTTAGT
Found at i:18542376 original size:43 final size:42
Alignment explanation
Indices: 18542329--18542419 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 42
18542319 TTTAGCGGCA
*
18542329 TTTGTGAGAAAAGCACTGCTAAAAGTCATGGC-TTTTAACGGTG
1 TTTGTG-GAAAAGCACCGCT-AAAGTCATGGCTTTTTAACGGTG
** * *
18542372 TTTGTTGGGGAAGCGCCGCTAAAGTCATGGCTTTTTAATGGTG
1 TTTG-TGGAAAAGCACCGCTAAAGTCATGGCTTTTTAACGGTG
18542415 TTTGT
1 TTTGT
18542420 TGGGGAAGCG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
42 12 0.29
43 27 0.66
44 2 0.05
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.35
Consensus pattern (42 bp):
TTTGTGGAAAAGCACCGCTAAAGTCATGGCTTTTTAACGGTG
Found at i:18542420 original size:43 final size:42
Alignment explanation
Indices: 18542350--18542451 Score: 150
Period size: 43 Copynumber: 2.4 Consensus size: 42
18542340 AGCACTGCTA
*
18542350 AAAGTCATGGCTTTTAACGGTGTTTGTTGGGGAAGCGCCGCT
1 AAAGTCATGGCTTTTAACGGTGTTTGTTGGGGAAGCGCCACT
*
18542392 AAAGTCATGGCTTTTTAATGGTGTTTGTTGGGGAAGCGCCACT
1 AAAGTCATGGC-TTTTAACGGTGTTTGTTGGGGAAGCGCCACT
* *
18542435 AAAAGCCATGACTTTTA
1 -AAAGTCATGGCTTTTA
18542452 GCGGCGCTTC
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
42 11 0.20
43 34 0.63
44 9 0.17
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (42 bp):
AAAGTCATGGCTTTTAACGGTGTTTGTTGGGGAAGCGCCACT
Found at i:18548354 original size:9 final size:9
Alignment explanation
Indices: 18548340--18548694 Score: 410
Period size: 9 Copynumber: 39.7 Consensus size: 9
18548330 TAACTCTAAT
18548340 TAAGTTATG
1 TAAGTTATG
18548349 TAAGTTATG
1 TAAGTTATG
* * *
18548358 ATATGATATA
1 -TAAGTTATG
* *
18548368 T-ATTTAAG
1 TAAGTTATG
*
18548376 T-A-TTATA
1 TAAGTTATG
18548383 TAAGTTATG
1 TAAGTTATG
*
18548392 TAAATTATG
1 TAAGTTATG
18548401 TAAGTTATG
1 TAAGTTATG
18548410 TAAGTTATG
1 TAAGTTATG
*
18548419 TGAGTTATG
1 TAAGTTATG
*
18548428 TGAGTTATG
1 TAAGTTATG
*
18548437 TGAGTTATG
1 TAAGTTATG
*
18548446 CAAGTTATG
1 TAAGTTATG
*
18548455 TAAGTTATA
1 TAAGTTATG
18548464 TAAGTTATG
1 TAAGTTATG
18548473 TAAGTTATG
1 TAAGTTATG
*
18548482 TGAGTTATG
1 TAAGTTATG
18548491 TAAGTTATG
1 TAAGTTATG
*
18548500 TAAGTTATA
1 TAAGTTATG
18548509 TAAGTTATG
1 TAAGTTATG
*
18548518 TAAGTAATG
1 TAAGTTATG
*
18548527 TGAGTTATG
1 TAAGTTATG
*
18548536 TGAGTTATG
1 TAAGTTATG
*
18548545 TGAGTTATG
1 TAAGTTATG
*
18548554 TGAGTTATG
1 TAAGTTATG
*
18548563 TGAGTTATG
1 TAAGTTATG
18548572 TAAGTTATG
1 TAAGTTATG
* *
18548581 TGAGATATG
1 TAAGTTATG
*
18548590 TGAGTTATG
1 TAAGTTATG
*
18548599 TGAGTTATG
1 TAAGTTATG
*
18548608 TGAGTTATG
1 TAAGTTATG
*
18548617 TGAGTTATG
1 TAAGTTATG
18548626 TAAGTTATG
1 TAAGTTATG
*
18548635 TAAGTTATT
1 TAAGTTATG
*
18548644 TAATTTATG
1 TAAGTTATG
*
18548653 TAAGTTATA
1 TAAGTTATG
18548662 TAAGTTATG
1 TAAGTTATG
18548671 TAAGTTATG
1 TAAGTTATG
*
18548680 TGAGTTATG
1 TAAGTTATG
18548689 TAAGTT
1 TAAGTT
18548695 CAAGTATATA
Statistics
Matches: 304, Mismatches: 39, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
7 4 0.01
8 5 0.02
9 289 0.95
10 6 0.02
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:18550542 original size:33 final size:33
Alignment explanation
Indices: 18550500--18550566 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
18550490 TAAACAACAT
18550500 TAAATTGCTCAAAATGAAAATTATGGTACTACA
1 TAAATTGCTCAAAATGAAAATTATGGTACTACA
18550533 TAAATTGCTCAAAATGAAAATTATGGTACTACA
1 TAAATTGCTCAAAATGAAAATTATGGTACTACA
18550566 T
1 T
18550567 TTACACATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (33 bp):
TAAATTGCTCAAAATGAAAATTATGGTACTACA
Found at i:18557201 original size:188 final size:187
Alignment explanation
Indices: 18556921--18557283 Score: 448
Period size: 188 Copynumber: 1.9 Consensus size: 187
18556911 GCTATAAAAT
* * * * **
18556921 GACGCAGTTTCTGCAATCTATTAATAGGTTTTTGTGGCGTTTCTAGGGAAAACGTCGGTATTTCA
1 GACGCAGTTTCTGCAATCTACTAATAGATGTTTGTGGCGTTTCTAGGGAAAACGTCAGTAAATCA
* * * * *
18556986 CATCTTTTGTGGCGTTTATAAAAGCGCCACTAATAA-AAGGCTATAAAACGATGACGTTTTGA-A
66 CACCTTTTGCGGCGTTTATAAAAGCGCCACTAATAAGAAGGATAT-AAACAACGACGTTTT-ACA
* *
18557049 ATCTCTT-TAGATGTTTTGTGGCGTTTTTCCTAGAAGCTCCACTAATAACTTGGTAATAAC
129 ATCTCTTATAGATGTTTTGTGGCATTTTT--TAGAAGCGCCACTAATAACTTGGTAATAAC
* * *
18557109 GACGCCGTTT-TGCAATCTACTAATAGATGTTTGTGGCATTTTCTAGTGAAAACG-CTAGTAAAT
1 GACGCAGTTTCTGCAATCTACTAATAGATGTTTGTGGC-GTTTCTAGGGAAAACGTC-AGTAAAT
* * *
18557172 CACACCTTTTGCGGCGTTTATAGAAGCGCCACTAATAAGAAGGATGTAAACAACGTCGTTTTACA
64 CACACCTTTTGCGGCGTTTATAAAAGCGCCACTAATAAGAAGGATATAAACAACGACGTTTTACA
*
18557237 TTCTCTTAATAGATGTTTTGTGGCATTTTTTAGAAGCGCCACTAATA
129 ATCTCTT-ATAGATGTTTTGTGGCATTTTTTAGAAGCGCCACTAATA
18557284 TCAAAGCTTC
Statistics
Matches: 149, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
187 26 0.17
188 97 0.65
189 6 0.04
190 20 0.13
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (187 bp):
GACGCAGTTTCTGCAATCTACTAATAGATGTTTGTGGCGTTTCTAGGGAAAACGTCAGTAAATCA
CACCTTTTGCGGCGTTTATAAAAGCGCCACTAATAAGAAGGATATAAACAACGACGTTTTACAAT
CTCTTATAGATGTTTTGTGGCATTTTTTAGAAGCGCCACTAATAACTTGGTAATAAC
Found at i:18557785 original size:21 final size:21
Alignment explanation
Indices: 18557759--18557812 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
18557749 AGTTTAAGGT
*
18557759 TTTATGGTTTTGGATTTAGGG
1 TTTATGGTTTTAGATTTAGGG
*
18557780 TTTATGGTTTAAGATTTAGGG
1 TTTATGGTTTTAGATTTAGGG
*
18557801 TTTATAGTTTTA
1 TTTATGGTTTTA
18557813 AGACGTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54
Consensus pattern (21 bp):
TTTATGGTTTTAGATTTAGGG
Found at i:18562737 original size:188 final size:187
Alignment explanation
Indices: 18562457--18562819 Score: 448
Period size: 188 Copynumber: 1.9 Consensus size: 187
18562447 GCTATAAAAT
* * * * **
18562457 GACGCAGTTTCTGCAATCTATTAATAGGTTTTTGTGGCGTTTCTAGGGAAAACGTCGGTATTTCA
1 GACGCAGTTTCTGCAATCTACTAATAGATGTTTGTGGCGTTTCTAGGGAAAACGTCAGTAAATCA
* * * * *
18562522 CATCTTTTGTGGCGTTTATAAAAGCGCCACTAATAA-AAGGCTATAAAACGATGACGTTTTGA-A
66 CACCTTTTGCGGCGTTTATAAAAGCGCCACTAATAAGAAGGATAT-AAACAACGACGTTTT-ACA
* *
18562585 ATCTCTT-TAGATGTTTTGTGGCGTTTTTCCTAGAAGCTCCACTAATAACTTGGTAATAAC
129 ATCTCTTATAGATGTTTTGTGGCATTTTT--TAGAAGCGCCACTAATAACTTGGTAATAAC
* * *
18562645 GACGCCGTTT-TGCAATCTACTAATAGATGTTTGTGGCATTTTCTAGTGAAAACG-CTAGTAAAT
1 GACGCAGTTTCTGCAATCTACTAATAGATGTTTGTGGC-GTTTCTAGGGAAAACGTC-AGTAAAT
* * *
18562708 CACACCTTTTGCGGCGTTTATAGAAGCGCCACTAATAAGAAGGATGTAAACAACGTCGTTTTACA
64 CACACCTTTTGCGGCGTTTATAAAAGCGCCACTAATAAGAAGGATATAAACAACGACGTTTTACA
*
18562773 TTCTCTTAATAGATGTTTTGTGGCATTTTTTAGAAGCGCCACTAATA
129 ATCTCTT-ATAGATGTTTTGTGGCATTTTTTAGAAGCGCCACTAATA
18562820 TCAAAGCTTC
Statistics
Matches: 149, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
187 26 0.17
188 97 0.65
189 6 0.04
190 20 0.13
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (187 bp):
GACGCAGTTTCTGCAATCTACTAATAGATGTTTGTGGCGTTTCTAGGGAAAACGTCAGTAAATCA
CACCTTTTGCGGCGTTTATAAAAGCGCCACTAATAAGAAGGATATAAACAACGACGTTTTACAAT
CTCTTATAGATGTTTTGTGGCATTTTTTAGAAGCGCCACTAATAACTTGGTAATAAC
Found at i:18563365 original size:21 final size:21
Alignment explanation
Indices: 18563341--18563382 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
18563331 CATTTTATAA
18563341 TTTA-AGGTCTAGTGATTTAGG
1 TTTATAGGTCTA-TGATTTAGG
* *
18563362 TTTATAGTTTTATGATTTAGG
1 TTTATAGGTCTATGATTTAGG
18563383 AATCAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.50
Consensus pattern (21 bp):
TTTATAGGTCTATGATTTAGG
Found at i:18575332 original size:20 final size:21
Alignment explanation
Indices: 18575302--18575346 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
18575292 CAGGGGAAGG
18575302 AAAGAAAGAAAAAGAGAAAAT-
1 AAAGAAAG-AAAAGAGAAAATC
*
18575323 AAAG-AAGAAAAGGGAAAATC
1 AAAGAAAGAAAAGAGAAAATC
18575343 AAAG
1 AAAG
18575347 GTGTTAAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.71, C:0.02, G:0.22, T:0.04
Consensus pattern (21 bp):
AAAGAAAGAAAAGAGAAAATC
Found at i:18577326 original size:46 final size:46
Alignment explanation
Indices: 18577269--18577496 Score: 278
Period size: 46 Copynumber: 5.0 Consensus size: 46
18577259 AGTGTGCTCT
*
18577269 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
18577315 CTGATACGAAATGTGTAAGACCATGGTTGAAAGATACTATGGTAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
18577361 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
18577407 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
18577453 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
18577497 TCATGTCAAA
Statistics
Matches: 159, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 1 0.01
46 158 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:18581844 original size:46 final size:46
Alignment explanation
Indices: 18581791--18581926 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
18581781 AGTGTGCTCT
18581791 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
18581837 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
18581883 ATGATA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
18581927 TCATGTCAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
45 1 0.01
46 83 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:18590806 original size:12 final size:12
Alignment explanation
Indices: 18590773--18590806 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
18590763 TGAGGGAAAA
*
18590773 GTGGAGAGAGTT
1 GTGGAGAGATTT
18590785 GTGGAGAGATTT
1 GTGGAGAGATTT
18590797 GTGGAGAGAT
1 GTGGAGAGAT
18590807 AGGGGGAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.47, T:0.26
Consensus pattern (12 bp):
GTGGAGAGATTT
Found at i:18596222 original size:9 final size:9
Alignment explanation
Indices: 18596208--18596552 Score: 417
Period size: 9 Copynumber: 38.7 Consensus size: 9
18596198 TAACTCTAAT
18596208 TAAGTTATG
1 TAAGTTATG
18596217 TAAGTTATG
1 TAAGTTATG
* * *
18596226 TATGATATA
1 TAAGTTATG
*
18596235 T-ATTTATG
1 TAAGTTATG
18596243 T-A-TTATG
1 TAAGTTATG
18596250 TAAGTTATG
1 TAAGTTATG
*
18596259 TAAATTATG
1 TAAGTTATG
18596268 TAAGTTATG
1 TAAGTTATG
18596277 TAAGTTATG
1 TAAGTTATG
*
18596286 TGAGTTATG
1 TAAGTTATG
*
18596295 TGAGTTATG
1 TAAGTTATG
*
18596304 TGAGTTATG
1 TAAGTTATG
*
18596313 CAAGTTATG
1 TAAGTTATG
*
18596322 TAAGTTATA
1 TAAGTTATG
18596331 TAAGTTATG
1 TAAGTTATG
18596340 TAAGTTATG
1 TAAGTTATG
* * *
18596349 TGAGTTTTC
1 TAAGTTATG
*
18596358 TAAGTTATT
1 TAAGTTATG
*
18596367 TAAGTTATA
1 TAAGTTATG
18596376 TAAGTTATG
1 TAAGTTATG
*
18596385 TAAGTAATG
1 TAAGTTATG
*
18596394 TGAGTTATG
1 TAAGTTATG
*
18596403 TGAGTTATG
1 TAAGTTATG
*
18596412 TGAGTTATG
1 TAAGTTATG
* *
18596421 TGAGTTGTG
1 TAAGTTATG
*
18596430 TGAGTTATG
1 TAAGTTATG
18596439 TAAGTTATG
1 TAAGTTATG
18596448 TAAGTTATG
1 TAAGTTATG
*
18596457 TGAGTTATG
1 TAAGTTATG
*
18596466 TGAGTTATG
1 TAAGTTATG
*
18596475 TGAGTTATG
1 TAAGTTATG
*
18596484 TGAGTTATG
1 TAAGTTATG
18596493 TAAGTTATG
1 TAAGTTATG
18596502 TAAGTTATG
1 TAAGTTATG
*
18596511 TAAGTTATA
1 TAAGTTATG
18596520 TAAGTTATG
1 TAAGTTATG
18596529 TAAGTTATG
1 TAAGTTATG
*
18596538 TGAGTTATG
1 TAAGTTATG
18596547 TAAGTT
1 TAAGTT
18596553 CAAGTATATA
Statistics
Matches: 299, Mismatches: 35, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
7 6 0.02
8 6 0.02
9 287 0.96
ACGTcount: A:0.30, C:0.01, G:0.24, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:18606675 original size:519 final size:519
Alignment explanation
Indices: 18605696--18606734 Score: 1988
Period size: 519 Copynumber: 2.0 Consensus size: 519
18605686 TTGCTGTGAG
18605696 AATGAACTGCTCGTCGGTCTTTTCTTCCAATTTCTAGTCTCAGCCTCTACTTTTTTCTTCTCTTT
1 AATGAACTGCTCGTCGGTCTTTTCTTCCAATTTCTAGTCTCAGCCTCTACTTTTTTCTTCTCTTT
* *
18605761 AAGTAGTTCTTCAGCCTTGCAAGCTCGATCAACCAGTACTACCATTTCTTTTAATTCAAGAATCC
66 AAGTAGTTCTTCAGCCTTGCAAACTCGATCAACCAGTACTACCATTTCTTTTAACTCAAGAATCC
*
18605826 CAACAAATACTTTGATGTCTTCATTGAGTCCGTCTTCAAATCGTCTGCACATTTTAGCTTCTGTA
131 CAACAAATACATTGATGTCTTCATTGAGTCCGTCTTCAAATCGTCTGCACATTTTAGCTTCTGTA
18605891 GGAATATATTCTCTAGCATACTTACTCAACCTGACAAACTCCCTTTCGTATTCAGTAACTGTCAT
196 GGAATATATTCTCTAGCATACTTACTCAACCTGACAAACTCCCTTTCGTATTCAGTAACTGTCAT
18605956 GTTCCCCTGCTTTAATTCAAGAAACTCTTTACGCTTCTGATCAATAAATCTTTCACTGATATATT
261 GTTCCCCTGCTTTAATTCAAGAAACTCTTTACGCTTCTGATCAATAAATCTTTCACTGATATATT
18606021 TCTTCCGAAATTCTTCTTGAAAGAACTCCCAAGTTACTTTCTCTTTCGGTACTACTGAAGTCAAT
326 TCTTCCGAAATTCTTCTTGAAAGAACTCCCAAGTTACTTTCTCTTTCGGTACTACTGAAGTCAAT
18606086 GTCTTCCACCAATGATAAGCTGAATCCCTCAACAATGATATAGCACATTTCAAGCATTCCTCAGG
391 GTCTTCCACCAATGATAAGCTGAATCCCTCAACAATGATATAGCACATTTCAAGCATTCCTCAGG
18606151 TGTACAAGACAATTCATCAAATACTCGAATAGAATTCTCAAGCCAAAACTCTATTTTCTCGGCA
456 TGTACAAGACAATTCATCAAATACTCGAATAGAATTCTCAAGCCAAAACTCTATTTTCTCGGCA
18606215 AATGAACTGCTCGTCGGTCTTTTCTTCCAATTTCTAGTCTCAGCCTCTACTTTTTTCTTCTCTTT
1 AATGAACTGCTCGTCGGTCTTTTCTTCCAATTTCTAGTCTCAGCCTCTACTTTTTTCTTCTCTTT
*
18606280 AAGTAGTTCTTCAGCCTTGCAAACTCGATCAACCAGTACTACCATTTCTTTTAACTCATGAATCC
66 AAGTAGTTCTTCAGCCTTGCAAACTCGATCAACCAGTACTACCATTTCTTTTAACTCAAGAATCC
18606345 CAACAAATACATTGATGTCTTCATTGAGTCCGTCTTCAAATCGTCTGCACATTTTAGCTTCTGTA
131 CAACAAATACATTGATGTCTTCATTGAGTCCGTCTTCAAATCGTCTGCACATTTTAGCTTCTGTA
* * *
18606410 GGAATATATTCTCTAGCATACTTACTCAACCTGTCGAACTCCCTTTCGTATTCAGTATCTGTCAT
196 GGAATATATTCTCTAGCATACTTACTCAACCTGACAAACTCCCTTTCGTATTCAGTAACTGTCAT
*
18606475 GTTCCCCTGCTTTAATTCAAGAAACTCTTTATGCTTCTGATCAATAAATCTTTCACTGATATATT
261 GTTCCCCTGCTTTAATTCAAGAAACTCTTTACGCTTCTGATCAATAAATCTTTCACTGATATATT
18606540 TCTTCCGAAATTCTTCTTGAAAGAACTCCCAAGTTACTTTCTCTTTCGGTACTACTGAAGTCAAT
326 TCTTCCGAAATTCTTCTTGAAAGAACTCCCAAGTTACTTTCTCTTTCGGTACTACTGAAGTCAAT
* *
18606605 GTCTTCCACCAATGATAAGCTGAATCCCTCAATAATGATATAGCACATTTTAAGCATTCCTCAGG
391 GTCTTCCACCAATGATAAGCTGAATCCCTCAACAATGATATAGCACATTTCAAGCATTCCTCAGG
18606670 TGTACAAGACAATTCATCAAATACTCGAATAGAATTCTCAAGCCAAAACTCTATTTTCTCGGCA
456 TGTACAAGACAATTCATCAAATACTCGAATAGAATTCTCAAGCCAAAACTCTATTTTCTCGGCA
18606734 A
1 A
18606735 CATCATCAAT
Statistics
Matches: 510, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
519 510 1.00
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (519 bp):
AATGAACTGCTCGTCGGTCTTTTCTTCCAATTTCTAGTCTCAGCCTCTACTTTTTTCTTCTCTTT
AAGTAGTTCTTCAGCCTTGCAAACTCGATCAACCAGTACTACCATTTCTTTTAACTCAAGAATCC
CAACAAATACATTGATGTCTTCATTGAGTCCGTCTTCAAATCGTCTGCACATTTTAGCTTCTGTA
GGAATATATTCTCTAGCATACTTACTCAACCTGACAAACTCCCTTTCGTATTCAGTAACTGTCAT
GTTCCCCTGCTTTAATTCAAGAAACTCTTTACGCTTCTGATCAATAAATCTTTCACTGATATATT
TCTTCCGAAATTCTTCTTGAAAGAACTCCCAAGTTACTTTCTCTTTCGGTACTACTGAAGTCAAT
GTCTTCCACCAATGATAAGCTGAATCCCTCAACAATGATATAGCACATTTCAAGCATTCCTCAGG
TGTACAAGACAATTCATCAAATACTCGAATAGAATTCTCAAGCCAAAACTCTATTTTCTCGGCA
Found at i:18609132 original size:30 final size:30
Alignment explanation
Indices: 18609087--18609146 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
18609077 ATTTAATACG
*
18609087 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
18609117 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
18609147 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:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:18610216 original size:27 final size:23
Alignment explanation
Indices: 18610158--18610216 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
18610148 TTAATAATAT
18610158 TTAAATAAATTAATCCAAATTATA
1 TTAAAT-AATTAATCCAAATTATA
* *
18610182 TT-ATTAATTAATCCAAATTGTA
1 TTAAATAATTAATCCAAATTATA
* *
18610204 TTAATTAAATAAT
1 TTAAATAATTAAT
18610217 ATTTAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.58
23 11 0.35
24 2 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (23 bp):
TTAAATAATTAATCCAAATTATA
Found at i:18610231 original size:20 final size:19
Alignment explanation
Indices: 18610206--18610270 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
18610196 AAATTGTATT
18610206 AATTAAATAATATTTAAATA
1 AATTAAATAATA-TTAAATA
* *
18610226 AATT-AATCCAA-ATTATATT
1 AATTAAAT--AATATTAAATA
18610245 AATTAAATAATAATTAAATA
1 AATTAAATAAT-ATTAAATA
18610265 AATTAA
1 AATTAA
18610271 TCCAAATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
18 2 0.06
19 12 0.33
20 20 0.56
21 2 0.06
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTAAATAATATTAAATA
Found at i:18610234 original size:39 final size:39
Alignment explanation
Indices: 18610187--18610290 Score: 190
Period size: 39 Copynumber: 2.7 Consensus size: 39
18610177 TTATATTATT
* *
18610187 AATTAATCCAAATTGTATTAATTAAATAATATTTAAATA
1 AATTAATCCAAATTATATTAATTAAATAATAATTAAATA
18610226 AATTAATCCAAATTATATTAATTAAATAATAATTAAATA
1 AATTAATCCAAATTATATTAATTAAATAATAATTAAATA
18610265 AATTAATCCAAATTATATTAATTAAA
1 AATTAATCCAAATTATATTAATTAAA
18610291 ATAAGATTGA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (39 bp):
AATTAATCCAAATTATATTAATTAAATAATAATTAAATA
Found at i:18610260 original size:11 final size:12
Alignment explanation
Indices: 18610203--18610290 Score: 63
Period size: 11 Copynumber: 6.8 Consensus size: 12
18610193 TCCAAATTGT
18610203 ATTAATTAAATA
1 ATTAATTAAATA
*
18610215 A-TATTTAAATAA
1 ATTAATTAAAT-A
*
18610227 ATTAATCCAAATTA
1 ATTAAT-TAAA-TA
18610241 TATTAATTAAATA
1 -ATTAATTAAATA
18610254 A-TAATTAAATAA
1 ATTAATTAAAT-A
*
18610266 ATTAATCCAAATTA
1 ATTAAT-TAAA-TA
18610280 TATTAATTAAA
1 -ATTAATTAAA
18610291 ATAAGATTGA
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
11 17 0.28
12 6 0.10
13 9 0.15
14 14 0.23
15 14 0.23
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTAATTAAATA
Found at i:18610287 original size:19 final size:19
Alignment explanation
Indices: 18610165--18610289 Score: 103
Period size: 19 Copynumber: 6.3 Consensus size: 19
18610155 TATTTAAATA
18610165 AATTAATCCAAATTATATTATT
1 AATTAATCCAAA-T-TA-TATT
*
18610187 AATTAATCCAAATTGTATT
1 AATTAATCCAAATTATATT
* *
18610206 AATTAAAT--AATATTTAAATA
1 AATT-AATCCAA-A-TTATATT
18610226 AATTAATCCAAATTATATT
1 AATTAATCCAAATTATATT
* * *
18610245 AATTAAAT-AATAATTAAATA
1 AATT-AATCCA-AATTATATT
18610265 AATTAATCCAAATTATATT
1 AATTAATCCAAATTATATT
18610284 AATTAA
1 AATTAA
18610290 AATAAGATTG
Statistics
Matches: 83, Mismatches: 12, Indels: 19
0.73 0.11 0.17
Matches are distributed among these distances:
18 2 0.02
19 38 0.46
20 28 0.34
21 3 0.04
22 12 0.14
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (19 bp):
AATTAATCCAAATTATATT
Found at i:18610292 original size:15 final size:14
Alignment explanation
Indices: 18610129--18610290 Score: 72
Period size: 15 Copynumber: 11.6 Consensus size: 14
18610119 AAAAATTGTT
*
18610129 TTAATTAAATAATA
1 TTAATTAAATTATA
* *
18610143 TTAATTTAATAATA
1 TTAATTAAATTATA
*
18610157 TTTAAATAAATTA-A
1 -TTAATTAAATTATA
* *
18610171 TCCAAATTATATTATTAA
1 T--TAATTAAATTA-T-A
* *
18610189 TTAATCCAAATTGTA
1 TTAAT-TAAATTATA
18610204 TTAATTAAA-TA-A
1 TTAATTAAATTATA
* *
18610216 -TATTTAAA-TAAA
1 TTAATTAAATTATA
*
18610228 TTAATCCAAATTATA
1 TTAAT-TAAATTATA
18610243 TTAATTAAA-TA-A
1 TTAATTAAATTATA
*
18610255 -TAATTAAA-TAAA
1 TTAATTAAATTATA
*
18610267 TTAATCCAAATTATA
1 TTAAT-TAAATTATA
18610282 TTAATTAAA
1 TTAATTAAA
18610291 ATAAGATTGA
Statistics
Matches: 112, Mismatches: 21, Indels: 30
0.69 0.13 0.18
Matches are distributed among these distances:
11 19 0.17
12 4 0.04
13 11 0.10
14 29 0.26
15 39 0.35
16 4 0.04
17 4 0.04
18 2 0.02
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (14 bp):
TTAATTAAATTATA
Found at i:18612952 original size:40 final size:40
Alignment explanation
Indices: 18612884--18612997 Score: 160
Period size: 40 Copynumber: 2.9 Consensus size: 40
18612874 CCTTCGACAT
** *
18612884 TTAG-CCGGATATAACAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
* *
18612923 TTAGCCCGGATATAGTAACTCGCAAAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
*
18612963 TTAGCCC-GATATAGTCACTAGCACAAATGCCTTCG
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCG
18612998 AATCTTAGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 29 0.43
40 38 0.57
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
Found at i:18613005 original size:39 final size:39
Alignment explanation
Indices: 18612904--18613005 Score: 134
Period size: 39 Copynumber: 2.6 Consensus size: 39
18612894 ATAACAACTT
* * *
18612904 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTC
1 GCACAAATGCCTTCGGAACTTAGCCC-GATATAGTCACTA
* *
18612944 GCAAAAATGCCTTCGGGACTTAGCCCGATATAGTCACTA
1 GCACAAATGCCTTCGGAACTTAGCCCGATATAGTCACTA
18612983 GCACAAATGCCTTC-GAATCTTAG
1 GCACAAATGCCTTCGGAA-CTTAG
18613006 TCCGGTTATC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
38 2 0.04
39 29 0.52
40 25 0.45
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (39 bp):
GCACAAATGCCTTCGGAACTTAGCCCGATATAGTCACTA
Found at i:18616622 original size:40 final size:40
Alignment explanation
Indices: 18616578--18616684 Score: 169
Period size: 40 Copynumber: 2.7 Consensus size: 40
18616568 CTTTTATTAT
* * *
18616578 GCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCCTTTGC
1 GCTAGTGACTATATCTGGGCTAAGTCCCGAAGGCATTTAC
*
18616618 GCTAGTGACTATATCTGGGCTAAGTCCCGAAGGCATTTAT
1 GCTAGTGACTATATCTGGGCTAAGTCCCGAAGGCATTTAC
*
18616658 GCTGGTGACTATATCTGGGCTAAGTCC
1 GCTAGTGACTATATCTGGGCTAAGTCC
18616685 TTCGGTTGGC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (40 bp):
GCTAGTGACTATATCTGGGCTAAGTCCCGAAGGCATTTAC
Found at i:18621435 original size:40 final size:40
Alignment explanation
Indices: 18621375--18621630 Score: 395
Period size: 40 Copynumber: 6.4 Consensus size: 40
18621365 NNNNNNNNNN
* *
18621375 TTTAAACCCGGATTCCATTCCAGCACAAAGCCTACGGGTC
1 TTTAAACCCGGATACAATTCCAGCACAAAGCCTACGGGTC
* * *
18621415 TTTAAACCCGGATACAATTCCAGCATATAGCCTGCGGGTC
1 TTTAAACCCGGATACAATTCCAGCACAAAGCCTACGGGTC
*
18621455 TTTAAACCCGGATACCATTCCAGCACAAAGCCTACGGGTC
1 TTTAAACCCGGATACAATTCCAGCACAAAGCCTACGGGTC
* * *
18621495 TTTAAACCCGGATACAATTCCAGCATATAGCCTGCGGGTC
1 TTTAAACCCGGATACAATTCCAGCACAAAGCCTACGGGTC
18621535 TTTAAACCCGGATACAATTCCAGCACAAAGCCTACGGGTC
1 TTTAAACCCGGATACAATTCCAGCACAAAGCCTACGGGTC
* * *
18621575 TTTAAACCCGGATACAATTCCAGCATATAGCCTGCGGGTC
1 TTTAAACCCGGATACAATTCCAGCACAAAGCCTACGGGTC
*
18621615 TTTAAACACGGATACA
1 TTTAAACCCGGATACA
18621631 CACATCAAAT
Statistics
Matches: 196, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 196 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (40 bp):
TTTAAACCCGGATACAATTCCAGCACAAAGCCTACGGGTC
Found at i:18621508 original size:80 final size:80
Alignment explanation
Indices: 18621375--18621629 Score: 483
Period size: 80 Copynumber: 3.2 Consensus size: 80
18621365 NNNNNNNNNN
*
18621375 TTTAAACCCGGATTCCATTCCAGCACAAAGCCTACGGGTCTTTAAACCCGGATACAATTCCAGCA
1 TTTAAACCCGGATACCATTCCAGCACAAAGCCTACGGGTCTTTAAACCCGGATACAATTCCAGCA
18621440 TATAGCCTGCGGGTC
66 TATAGCCTGCGGGTC
18621455 TTTAAACCCGGATACCATTCCAGCACAAAGCCTACGGGTCTTTAAACCCGGATACAATTCCAGCA
1 TTTAAACCCGGATACCATTCCAGCACAAAGCCTACGGGTCTTTAAACCCGGATACAATTCCAGCA
18621520 TATAGCCTGCGGGTC
66 TATAGCCTGCGGGTC
*
18621535 TTTAAACCCGGATACAATTCCAGCACAAAGCCTACGGGTCTTTAAACCCGGATACAATTCCAGCA
1 TTTAAACCCGGATACCATTCCAGCACAAAGCCTACGGGTCTTTAAACCCGGATACAATTCCAGCA
18621600 TATAGCCTGCGGGTC
66 TATAGCCTGCGGGTC
*
18621615 TTTAAACACGGATAC
1 TTTAAACCCGGATAC
18621630 ACACATCAAA
Statistics
Matches: 172, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 172 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.23
Consensus pattern (80 bp):
TTTAAACCCGGATACCATTCCAGCACAAAGCCTACGGGTCTTTAAACCCGGATACAATTCCAGCA
TATAGCCTGCGGGTC
Found at i:18635191 original size:41 final size:40
Alignment explanation
Indices: 18635131--18635245 Score: 124
Period size: 41 Copynumber: 2.8 Consensus size: 40
18635121 AATAGTAGTG
*
18635131 TTGAATTGCACATAGGTGCCTCTATTTGTACTTCAGTACCC
1 TTGAATTGCACATACGTGCC-CTATTTGTACTTCAGTACCC
* * * *
18635172 TTGAATTGCACATACGTGCCCTTGTTTTTAGTTCGGTACCC
1 TTGAATTGCACATACGTGCCC-TATTTGTACTTCAGTACCC
** *
18635213 -CAAATTGCACATACGTTCCCCTATTTGTACTTC
1 TTGAATTGCACATACG-TGCCCTATTTGTACTTC
18635246 GATACCCCTA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
40 23 0.38
41 38 0.62
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (40 bp):
TTGAATTGCACATACGTGCCCTATTTGTACTTCAGTACCC
Found at i:18635252 original size:40 final size:40
Alignment explanation
Indices: 18635134--18635262 Score: 127
Period size: 40 Copynumber: 3.2 Consensus size: 40
18635124 AGTAGTGTTG
* * **
18635134 AATTGCACATAGGTGCCTCTATTTGTACTTC-AGTACCCTTG
1 AATTGCACATACGTGCCCCTATTTGTACTTCGA-TACCC-CA
* * * * *
18635175 AATTGCACATACGTGCCCTTGTTTTTAGTTCGGTACCCCA
1 AATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCA
*
18635215 AATTGCACATACGTTCCCCTATTTGTACTTCGATACCCCTA
1 AATTGCACATACGTGCCCCTATTTGTACTTCGATACCCC-A
18635256 AA-TGCAC
1 AATTGCAC
18635263 TTTTGTACCC
Statistics
Matches: 71, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
40 38 0.54
41 33 0.46
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (40 bp):
AATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCA
Found at i:18636014 original size:30 final size:30
Alignment explanation
Indices: 18635978--18636038 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
18635968 TAGTCGTATA
* *
18635978 TGACACACGGCTTGATGACACGGCCGTGTG
1 TGACACACGGCCTGATGACACGACCGTGTG
* *
18636008 TGACACATGGCCTGATGACATGACCGTGTG
1 TGACACACGGCCTGATGACACGACCGTGTG
18636038 T
1 T
18636039 CCCCTATAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (30 bp):
TGACACACGGCCTGATGACACGACCGTGTG
Found at i:18643903 original size:6 final size:6
Alignment explanation
Indices: 18643892--18643972 Score: 105
Period size: 6 Copynumber: 13.8 Consensus size: 6
18643882 AAAATGTAAT
*
18643892 TAAAAA TAAAAA TAAAAA TAAAAA TATATAA TAAAAA T-AAAA T-AAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA-AAAA TAAAAA TAAAAA TAAAAA
* *
18643939 T-AAAA TAAAAA TAAAAA TAAACA TAAAGA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
18643973 TTTCTTTATT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
5 15 0.22
6 48 0.71
7 5 0.07
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:18645737 original size:46 final size:46
Alignment explanation
Indices: 18645687--18645862 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18645677 TGGTTGAGCA
18645687 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18645733 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
18645778 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18645826 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18645863 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18645843 original size:93 final size:93
Alignment explanation
Indices: 18645684--18645855 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18645674 GGATGGTTGA
* *
18645684 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18645749 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
18645777 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18645842 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
18645856 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18646479 original size:11 final size:11
Alignment explanation
Indices: 18646463--18646496 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
18646453 ATCTTATGGT
18646463 ATGGTTGTGGA
1 ATGGTTGTGGA
18646474 ATGGTTGTGGA
1 ATGGTTGTGGA
*
18646485 ATGGTTGAGGA
1 ATGGTTGTGGA
18646496 A
1 A
18646497 ATATGCCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (11 bp):
ATGGTTGTGGA
Found at i:18653314 original size:46 final size:46
Alignment explanation
Indices: 18653264--18653439 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18653254 TGGTTGAGCA
18653264 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18653310 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
18653355 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18653403 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18653440 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18653420 original size:93 final size:93
Alignment explanation
Indices: 18653261--18653432 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18653251 GGATGGTTGA
* *
18653261 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18653326 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
18653354 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18653419 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
18653433 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18655711 original size:29 final size:29
Alignment explanation
Indices: 18655599--18655738 Score: 158
Period size: 29 Copynumber: 4.9 Consensus size: 29
18655589 TGAATATAAG
* * * * *
18655599 GTGATTTGGGCGTAACGGGCCATATAAAG
1 GTGAATTGGGCCTAATGGGCCATATGAAT
*
18655628 GTGATTTGGGCCTAATGGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* * *
18655657 ATGAATTGGGCCTGATGGGCTATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
*
18655686 GTGAATTGGGCCTGATGGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* *
18655715 GAG-ATTGGGCCAAAT-GGCCATATG
1 GTGAATTGGGCCTAATGGGCCATATG
18655739 CACATATGTA
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
27 9 0.09
28 10 0.10
29 79 0.81
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.27
Consensus pattern (29 bp):
GTGAATTGGGCCTAATGGGCCATATGAAT
Found at i:18660669 original size:44 final size:44
Alignment explanation
Indices: 18660620--18660705 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
18660610 ACACGCGCGC
18660620 ATATATATAGCCAAAGCTATCTCAATCTCGCACACTAAGTGCAA
1 ATATATATAGCCAAAGCTATCTCAATCTCGCACACTAAGTGCAA
** * * * *
18660664 ATATATATATTCGAAGGTATCTCGATGTCGCACACTAAGTGC
1 ATATATATAGCCAAAGCTATCTCAATCTCGCACACTAAGTGC
18660706 CCATAATTAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (44 bp):
ATATATATAGCCAAAGCTATCTCAATCTCGCACACTAAGTGCAA
Found at i:18667037 original size:14 final size:14
Alignment explanation
Indices: 18667020--18667047 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18667010 GAGAAGATAA
18667020 ATGAGTGTTGAGGG
1 ATGAGTGTTGAGGG
18667034 ATGAGTGTTGAGGG
1 ATGAGTGTTGAGGG
18667048 GTTGATGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.50, T:0.29
Consensus pattern (14 bp):
ATGAGTGTTGAGGG
Found at i:18667883 original size:34 final size:34
Alignment explanation
Indices: 18667845--18667913 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
18667835 AAAAGAGCTC
18667845 ATCCATAGATAATTTTACTTTTATATAAAAATTA
1 ATCCATAGATAATTTTACTTTTATATAAAAATTA
18667879 ATCCATAGATAATTTTACTTTTATATAAAAATTA
1 ATCCATAGATAATTTTACTTTTATATAAAAATTA
18667913 A
1 A
18667914 CTTAAACCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (34 bp):
ATCCATAGATAATTTTACTTTTATATAAAAATTA
Found at i:18668126 original size:32 final size:35
Alignment explanation
Indices: 18668067--18668132 Score: 84
Period size: 32 Copynumber: 2.0 Consensus size: 35
18668057 ATAGTAAATT
*
18668067 ATTATTATAATTAATATAATTTATTATTCTAATAA
1 ATTATTATAATTAATATAAATTATTATTCTAATAA
* *
18668102 ATTATT-TAA-TAATTTAAATT-TTATTTTAATA
1 ATTATTATAATTAATATAAATTATTATTCTAATA
18668133 GTAAATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 10 0.36
33 9 0.32
34 3 0.11
35 6 0.21
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (35 bp):
ATTATTATAATTAATATAAATTATTATTCTAATAA
Found at i:18668216 original size:15 final size:15
Alignment explanation
Indices: 18668196--18668252 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
18668186 TGTCAATATT
18668196 AATATTTTAATAATA
1 AATATTTTAATAATA
*
18668211 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
18668230 AATATATTAATAATA
1 AATATTTTAATAATA
*
18668245 AATGTTTT
1 AATATTTT
18668253 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:18668736 original size:14 final size:14
Alignment explanation
Indices: 18668714--18668768 Score: 74
Period size: 14 Copynumber: 3.9 Consensus size: 14
18668704 TTTCCAGAAA
*
18668714 AGAAGTCATTTTCC
1 AGAAATCATTTTCC
18668728 AGAAATCATTTTCC
1 AGAAATCATTTTCC
*
18668742 AAAAATCATTTTCC
1 AGAAATCATTTTCC
* *
18668756 GGAAGTCATTTTC
1 AGAAATCATTTTC
18668769 AATGAAACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (14 bp):
AGAAATCATTTTCC
Found at i:18670647 original size:9 final size:9
Alignment explanation
Indices: 18670633--18670666 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
18670623 TGGGTCTTAT
18670633 TGAATTTTG
1 TGAATTTTG
18670642 TGAATTTTG
1 TGAATTTTG
*
18670651 TGTATTTTG
1 TGAATTTTG
*
18670660 TGTATTT
1 TGAATTT
18670667 ATGAAATAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.62
Consensus pattern (9 bp):
TGAATTTTG
Found at i:18671158 original size:49 final size:43
Alignment explanation
Indices: 18671066--18671234 Score: 164
Period size: 43 Copynumber: 4.0 Consensus size: 43
18671056 TATCGAGATG
*
18671066 TGATTACATGTAAGCCCATGTCTGGGACATTGGCATTGTATTT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTT
*
18671109 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT-TATA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TT
*** * * * * * *
18671152 TGATTTTGTGTAAGACCCTTTCTGGGATAGTGGCATCG-ATATG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TT
* * * *
18671195 TGATAACATGTAAGACCATATCTGGGATA-TGACATTGTAT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
18671235 GAGCTTTATG
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
42 7 0.07
43 97 0.93
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.36
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTT
Found at i:18674065 original size:23 final size:23
Alignment explanation
Indices: 18674000--18674054 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
18673990 ACGTTTACCG
18674000 CTATTAGCAACTTTGCTGCGTTA
1 CTATTAGCAACTTTGCTGCGTTA
18674023 CTATTAGCAACTTTGCTGCGTTA
1 CTATTAGCAACTTTGCTGCGTTA
18674046 CTATTAGCA
1 CTATTAGCA
18674055 GCTACGCTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (23 bp):
CTATTAGCAACTTTGCTGCGTTA
Done.