Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 146 of 259
Found at i:47675135 original size:25 final size:25
Alignment explanation
Indices: 47675102--47675171 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
47675092 CTCTTTTAAT
47675102 AACTAGGGCAAAGCCC-TTTCTGATA
1 AACTAGGGCAAAGCCCTTTTC-GATA
* *
47675127 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATA
*
47675152 AACTAGGGCAGAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
47675172 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 36 0.90
26 4 0.10
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:47676119 original size:27 final size:27
Alignment explanation
Indices: 47676089--47676141 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
47676079 GGGTGTTTTG
47676089 GTAAATCTACAAACCAATGGTATTTCA
1 GTAAATCTACAAACCAATGGTATTTCA
* * **
47676116 GTAATTTTGTAAACCAATGGTATTTC
1 GTAAATCTACAAACCAATGGTATTTC
47676142 TATAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (27 bp):
GTAAATCTACAAACCAATGGTATTTCA
Found at i:47676294 original size:54 final size:53
Alignment explanation
Indices: 47676078--47676314 Score: 179
Period size: 54 Copynumber: 4.4 Consensus size: 53
47676068 TCATCCTACA
* * * * * *
47676078 AGGGTGTTTTGGTAAATCTACAAACCAATGGTATTTCAGTAATTTTGTAAACC
1 AGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACC
* * * * ** *
47676131 AATGGTATTTCT-ATAATTTTTAAAAAGTCAAGGGTATTTCTATAATTTTGTAAATCA
1 -AGGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCGGTAATTTTGTAAA-CC
* * * * * * ***
47676188 AGAGTATTTTCGTGATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAACC
1 AGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACC
* *
47676241 AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACC
1 AG-GGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACC
*
47676295 AAGGGTATTTTAGTAATTTT
1 -AGGGTATTTTGGTAATTTT
47676315 GTAAATCGAG
Statistics
Matches: 140, Mismatches: 36, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
53 3 0.02
54 85 0.61
55 20 0.14
56 31 0.22
57 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACC
Found at i:47676315 original size:27 final size:27
Alignment explanation
Indices: 47676099--47676328 Score: 144
Period size: 27 Copynumber: 8.4 Consensus size: 27
47676089 GTAAATCTAC
* *
47676099 AAACCAATGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
*
47676126 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTT-TAGTAATTTTGT
*
47676152 AAAAAGTCAAGGGTATTTCTA-TAATTTTGT
1 --AAA-CCAAGGGTATTT-TAGTAATTTTGT
* * * * **
47676182 AAATCAAGAGTATTTTCGTGATTTTAA
1 AAACCAAGGGTATTTTAGTAATTTTGT
*** ** ***
47676209 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTTAGTAATTTTGT
* **
47676236 AAACC-AGTGGTATTTTGGTAATTTTAC
1 AAACCAAG-GGTATTTTAGTAATTTTGT
* * *
47676263 AAACTAGGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
47676290 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
* *
47676317 AAATCGAGGGTA
1 AAACCAAGGGTA
47676329 AAGCGGTAAT
Statistics
Matches: 166, Mismatches: 29, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
26 4 0.02
27 133 0.80
28 8 0.05
29 20 0.12
30 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTGT
Found at i:47676328 original size:54 final size:54
Alignment explanation
Indices: 47676107--47676328 Score: 198
Period size: 54 Copynumber: 4.1 Consensus size: 54
47676097 ACAAACCAAT
* * * *
47676107 GGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTA-TAATTTTTAAAAAGTCAAG
1 GGTATTTCGGTAATTTTGTAAACCAAGGGTATTT-TAGTAA-TTTTATAAA-TCGAG
** * * * * * *
47676163 GGTATTTCTATAATTTTGTAAATCAAGAGTATTTTCGTGATTTTAAAAATTGAG
1 GGTATTTCGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAATCGAG
*** * * *
47676217 GGTATTTCGGTAATTTCACAAACC-AGTGGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTCGGTAATTTTGTAAACCAAG-GGTATTTTAGTAATTTTATAAATCGA-G
* *
47676271 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTCGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAATCGAG
47676325 GGTA
1 GGTA
47676329 AAGCGGTAAT
Statistics
Matches: 132, Mismatches: 29, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
53 3 0.02
54 84 0.64
55 14 0.11
56 31 0.23
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (54 bp):
GGTATTTCGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAATCGAG
Found at i:47676337 original size:27 final size:27
Alignment explanation
Indices: 47676307--47676463 Score: 224
Period size: 27 Copynumber: 5.8 Consensus size: 27
47676297 GGGTATTTTA
* * *
47676307 GTAATTTTGTAAATCGAGGGTAAAGCG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
47676334 GTAATTCTATAAATAGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
47676361 ATAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
47676388 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
47676415 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
47676442 GTAATTTTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
47676464 CTTTGGTAAT
Statistics
Matches: 117, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:47676471 original size:27 final size:27
Alignment explanation
Indices: 47676173--47676487 Score: 159
Period size: 27 Copynumber: 11.7 Consensus size: 27
47676163 GGTATTTCTA
* * * * *
47676173 TAATTTTGTAAATCAAGAGTATTTTCG
1 TAATTTTATAAATCGAGGGTAATTTGG
* * *
47676200 TGATTTTAAAAATTGAGGGT-ATTTCGG
1 TAATTTTATAAATCGAGGGTAATTT-GG
* * * *
47676227 TAATTTCACAAA-CCAGTGGTATTTTGG
1 TAATTTTATAAATCGAG-GGTAATTTGG
* * *
47676254 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTATAAATCGA-GGGTAATTTGG
* * * * *
47676281 TAATTTTGTAAACCAAGGGTATTTTAG
1 TAATTTTATAAATCGAGGGTAATTTGG
* ***
47676308 TAATTTTGTAAATCGAGGGTAAAGCGG
1 TAATTTTATAAATCGAGGGTAATTTGG
* * *** *
47676335 TAATTCTATAAATAGAGGGTAAAACGA
1 TAATTTTATAAATCGAGGGTAATTTGG
* * **
47676362 TAATTCTATAAATTGAGGGTAAAATGG
1 TAATTTTATAAATCGAGGGTAATTTGG
* * ***
47676389 TAATTCTGTAAATCGAGGGTAAAACGG
1 TAATTTTATAAATCGAGGGTAATTTGG
* * ***
47676416 TAATTCTGTAAATCGAGGGTAAAACGG
1 TAATTTTATAAATCGAGGGTAATTTGG
*
47676443 TAATTTTATAAATCGAGGGTACTTTGG
1 TAATTTTATAAATCGAGGGTAATTTGG
* *
47676470 TAATTTTACAAATTGAGG
1 TAATTTTATAAATCGAGG
47676488 ACATTTTAGT
Statistics
Matches: 237, Mismatches: 46, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
26 5 0.02
27 226 0.95
28 6 0.03
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (27 bp):
TAATTTTATAAATCGAGGGTAATTTGG
Found at i:47676471 original size:81 final size:81
Alignment explanation
Indices: 47676279--47676474 Score: 257
Period size: 81 Copynumber: 2.4 Consensus size: 81
47676269 GGGGTATTTT
* * * * * * *
47676279 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAGCGGTAATTCTAT
1 GGTAATTTTATAAATCGAGGGTAATTTGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
47676344 AAATAGAGGGTAAAAC
66 AAATAGAGGGTAAAAC
* * * ** *
47676360 GATAATTCTATAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGT
1 GGTAATTTTATAAATCGAGGGTAATTTGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
*
47676425 AAATCGAGGGTAAAAC
66 AAATAGAGGGTAAAAC
*
47676441 GGTAATTTTATAAATCGAGGGTACTTTGGTAATT
1 GGTAATTTTATAAATCGAGGGTAATTTGGTAATT
47676475 TTACAAATTG
Statistics
Matches: 95, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 95 1.00
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32
Consensus pattern (81 bp):
GGTAATTTTATAAATCGAGGGTAATTTGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
AAATAGAGGGTAAAAC
Found at i:47676499 original size:27 final size:27
Alignment explanation
Indices: 47676442--47676502 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
47676432 GGGTAAAACG
* ** *
47676442 GTAATTTTATAAATCGAGGGTACTTTG
1 GTAATTTTACAAATCGAGGACACTTTA
* *
47676469 GTAATTTTACAAATTGAGGACATTTTA
1 GTAATTTTACAAATCGAGGACACTTTA
47676496 GTAATTT
1 GTAATTT
47676503 GGTAAATTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGGACACTTTA
Found at i:47680634 original size:23 final size:23
Alignment explanation
Indices: 47680604--47680650 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
47680594 AAGATATCCT
47680604 TCAAAGGTTGATCATAAAACATG
1 TCAAAGGTTGATCATAAAACATG
47680627 TCAAAGGTTGATCATAAAACATG
1 TCAAAGGTTGATCATAAAACATG
47680650 T
1 T
47680651 AAACAAGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.28
Consensus pattern (23 bp):
TCAAAGGTTGATCATAAAACATG
Found at i:47683558 original size:20 final size:20
Alignment explanation
Indices: 47683529--47683566 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47683519 AGAAATAGAA
*
47683529 AAAAAAAGAAAGCCAAAGTG
1 AAAAAAAGAAAGACAAAGTG
*
47683549 AAAAACAGAAAGACAAAG
1 AAAAAAAGAAAGACAAAG
47683567 AGAGAAAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.11, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAAAAAGAAAGACAAAGTG
Found at i:47686413 original size:19 final size:19
Alignment explanation
Indices: 47686391--47686446 Score: 53
Period size: 18 Copynumber: 3.0 Consensus size: 19
47686381 ATTAAGGTTA
47686391 ATAAATATTTTATAAAAAT
1 ATAAATATTTTATAAAAAT
*** *
47686410 AT-AATAAAATATTAAAAAG
1 ATAAATATTTTA-TAAAAAT
47686429 ATAAATATTTTA-AAAAAT
1 ATAAATATTTTATAAAAAT
47686447 TACATATTAA
Statistics
Matches: 27, Mismatches: 8, Indels: 5
0.68 0.20 0.12
Matches are distributed among these distances:
18 11 0.41
19 10 0.37
20 6 0.22
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
ATAAATATTTTATAAAAAT
Found at i:47688583 original size:25 final size:26
Alignment explanation
Indices: 47688554--47688603 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
47688544 TATCATTAGA
*
47688554 ATATCTTG-TTTTTCTTATTATTTAT
1 ATATCTTGTTTTTTCCTATTATTTAT
47688579 ATATCTTGTTTTTTCCTATTATTTA
1 ATATCTTGTTTTTTCCTATTATTTA
47688604 ATCTTTATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.20, C:0.10, G:0.04, T:0.66
Consensus pattern (26 bp):
ATATCTTGTTTTTTCCTATTATTTAT
Found at i:47693161 original size:46 final size:46
Alignment explanation
Indices: 47693094--47693265 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
47693084 AACCCGCCCC
*
47693094 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
47693140 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
47693188 TCA-TGAACTCGGACTTAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
47693233 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
47693266 ATGCTCAACT
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 59 0.56
47 27 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:47693213 original size:93 final size:93
Alignment explanation
Indices: 47693098--47693269 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
47693088 CGCCCCTAAG
* *
47693098 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
47693163 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * *
47693191 TGAACTCGGACTTAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
47693256 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
47693270 TCAACTATCC
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:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:47700759 original size:46 final size:46
Alignment explanation
Indices: 47700692--47700862 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
47700682 AACCCGCCCC
*
47700692 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
47700738 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
47700786 TCA-TGAACTCGGACTTAACTCAACGAGTT-GGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
47700830 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
47700863 ATGCTCAACT
Statistics
Matches: 103, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
43 2 0.02
44 1 0.01
45 25 0.24
46 35 0.34
47 24 0.23
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:47700854 original size:92 final size:93
Alignment explanation
Indices: 47700696--47700866 Score: 281
Period size: 92 Copynumber: 1.8 Consensus size: 93
47700686 CGCCCCTAAG
* *
47700696 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
47700761 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * *
47700789 TGAACTCGGACTTAACTCAACGAG-TTGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
47700853 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
47700867 TCAACTATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 49 0.68
93 23 0.32
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:47701316 original size:29 final size:29
Alignment explanation
Indices: 47701284--47701342 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
47701274 ATTTAATACG
47701284 AACTTTTGAAAAATTACACTTTTGCCCCT
1 AACTTTTGAAAAATTACACTTTTGCCCCT
* *
47701313 AACTTTTGCATAATTACACTTTTGCCCCT
1 AACTTTTGAAAAATTACACTTTTGCCCCT
47701342 A
1 A
47701343 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (29 bp):
AACTTTTGAAAAATTACACTTTTGCCCCT
Found at i:47714990 original size:23 final size:23
Alignment explanation
Indices: 47714920--47714991 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
47714910 GATAAGCTAT
47714920 TGAGCTG-AACAGTAAGCTCTT-
1 TGAGCTGAAACAGTAAGCTCTTA
*** **
47714941 TCGAGCTGAATTGGTAAGCTCCAA
1 T-GAGCTGAAACAGTAAGCTCTTA
47714965 TGAGCTGAAACAGTAAGCTCTTA
1 TGAGCTGAAACAGTAAGCTCTTA
47714988 TGAG
1 TGAG
47714992 TGTGGTGAGT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
21 1 0.03
22 6 0.16
23 30 0.79
24 1 0.03
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTTA
Found at i:47731136 original size:91 final size:91
Alignment explanation
Indices: 47731027--47731194 Score: 293
Period size: 91 Copynumber: 1.8 Consensus size: 91
47731017 GCCCCTAAGT
* *
47731027 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTC-GACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCG-ATCCATAAGTGAACTCGGACTCAACTCAA
47731091 CGAGTTCGGATGCCTAGTTACATTCAC
65 CGAGTTCGGATGCCTAGTTACATTCAC
*
47731118 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGATCCATAAGTGAACTCGGACTCAACTCAAC
47731183 GAGTTCGGATGC
66 GAGTTCGGATGC
47731195 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
90 16 0.22
91 57 0.78
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTCAC
Found at i:47731191 original size:45 final size:44
Alignment explanation
Indices: 47731022--47731191 Score: 200
Period size: 45 Copynumber: 3.8 Consensus size: 44
47731012 AACCCGCCCC
* *
47731022 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-TTCG-ATCCA
* * * *
47731068 TAAGTGAACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CTTCGATCCA
* *
47731113 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-TTCGATCCA
47731158 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47731192 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
44 3 0.03
45 63 0.61
46 37 0.36
47 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (44 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACTTCGATCCA
Found at i:47731642 original size:30 final size:30
Alignment explanation
Indices: 47731608--47731667 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47731598 ATTTAATACG
47731608 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
47731638 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
47731668 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:47745701 original size:23 final size:23
Alignment explanation
Indices: 47745631--47745702 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
47745621 GATAAGCTAT
47745631 TGAGCTG-AACAGTAAGCTCTT-
1 TGAGCTGAAACAGTAAGCTCTTA
*** **
47745652 TCGAGCTGAATTGGTAAGCTCCAA
1 T-GAGCTGAAACAGTAAGCTCTTA
47745676 TGAGCTGAAACAGTAAGCTCTTA
1 TGAGCTGAAACAGTAAGCTCTTA
47745699 TGAG
1 TGAG
47745703 TGTGGTGAGT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
21 1 0.03
22 6 0.16
23 30 0.79
24 1 0.03
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTTA
Found at i:47750410 original size:29 final size:29
Alignment explanation
Indices: 47750329--47750447 Score: 127
Period size: 29 Copynumber: 4.2 Consensus size: 29
47750319 TACATACATG
*
47750329 CATATGGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCACTAGGCCCAATTCATATT
* *
47750357 CAAATGGCCCATCT-GGCCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAATTCATATT
* * *
47750386 CTTATGGCCCACTAGGACCAATTCACATT
1 CATATGGCCCACTAGGCCCAATTCATATT
* * *
47750415 CATATAGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAATTCATATT
47750444 -ATAT
1 CATAT
47750448 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
28 22 0.30
29 52 0.70
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAATTCATATT
Found at i:47756321 original size:14 final size:14
Alignment explanation
Indices: 47756281--47756322 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
47756271 TGATTAGAGG
* *
47756281 TTAATTAATTTAAT
1 TTAATTAACTTAAC
47756295 TTAATTAACTTAAGC
1 TTAATTAACTTAA-C
47756310 TTAATTAA-TTAAC
1 TTAATTAACTTAAC
47756323 CATTAAGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 1 0.04
14 16 0.64
15 8 0.32
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (14 bp):
TTAATTAACTTAAC
Found at i:47759007 original size:28 final size:28
Alignment explanation
Indices: 47758868--47758994 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
47758858 ATTGCATGAC
*
47758868 TATGAATGTGATTGGGCCTGACGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
47758896 TATGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
47758924 TATGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* **
47758952 TATGAATGTGATTGGTCCCAATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
47758980 TATGAATGAGATTGG
1 TATGAATGTGATTGG
47758995 CCTAAAGGGG
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 92 1.00
ACGTcount: A:0.25, C:0.14, G:0.34, T:0.27
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:47759012 original size:28 final size:28
Alignment explanation
Indices: 47758890--47759014 Score: 90
Period size: 28 Copynumber: 4.5 Consensus size: 28
47758880 TGGGCCTGAC
* * * ** *
47758890 GGGCCATATGAAAGTGATTGGGCCTGAT
1 GGGCCATATGAATGAGATTGGTCCAAAG
* * * ** *
47758918 GGGCCATATGAAAGTGATTGGGCCTGAT
1 GGGCCATATGAATGAGATTGGTCCAAAG
* * *
47758946 GGGCCATATGAATGTGATTGGTCCCAAT
1 GGGCCATATGAATGAGATTGGTCCAAAG
47758974 GGGCCATATGAATGAGATTGG-CCTAAAG
1 GGGCCATATGAATGAGATTGGTCC-AAAG
*
47759002 GGGCCAAATGAAT
1 GGGCCATATGAAT
47759015 AAGTATGGAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 2 0.02
28 86 0.98
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.24
Consensus pattern (28 bp):
GGGCCATATGAATGAGATTGGTCCAAAG
Found at i:47761655 original size:9 final size:9
Alignment explanation
Indices: 47761638--47761669 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
47761628 TTAATGGCCT
*
47761638 TGTTATATA
1 TGTTTTATA
47761647 TGTTTTATA
1 TGTTTTATA
47761656 TGTTTTATA
1 TGTTTTATA
47761665 TGTTT
1 TGTTT
47761670 ATTAAGTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (9 bp):
TGTTTTATA
Found at i:47762692 original size:45 final size:45
Alignment explanation
Indices: 47762588--47762741 Score: 132
Period size: 45 Copynumber: 3.3 Consensus size: 45
47762578 GAGTCACCAT
* * * *
47762588 AGCTCGTAAGAGCTTACTGTTTCAGCTCATTGGAGCTTACCGATTC
1 AGCTCGAAAGAGCTTACT-ATTCAGCTCAATAGAGCTTACCGATTC
* * *
47762634 AGCTCGAAAGAGCTTACTATTCAGCTCAATAGAGCTTATCGTTTTT
1 AGCTCGAAAGAGCTTACTATTCAGCTCAATAGAGCTTACCG-ATTC
* * *
47762680 AGCTC-AATGAGCTTACTATTTATCAGCTCATAAAGAGCTTACCGA-CC
1 AGCTCGAAAGAGCTTACTA--T-TCAGCTCA-ATAGAGCTTACCGATTC
47762727 ATGTCTCGAAAGAGC
1 A-G-CTCGAAAGAGC
47762742 ATGTATGATG
Statistics
Matches: 86, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
45 31 0.36
46 24 0.28
47 2 0.02
48 9 0.10
49 14 0.16
50 6 0.07
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (45 bp):
AGCTCGAAAGAGCTTACTATTCAGCTCAATAGAGCTTACCGATTC
Found at i:47762707 original size:24 final size:23
Alignment explanation
Indices: 47762597--47762709 Score: 78
Period size: 23 Copynumber: 4.9 Consensus size: 23
47762587 TAGCTCGTAA
* *
47762597 GAGCTTACT-GTTTCAGCTCATT
1 GAGCTTACTATTTTCAGCTCAAT
* *
47762619 GGAGCTTACCGA--TTCAGCTCGAAA
1 -GAGCTTA-CTATTTTCAGCTC-AAT
47762643 GAGCTTACTA--TTCAGCTCAAT
1 GAGCTTACTATTTTCAGCTCAAT
47762664 AGAGCTTATCGT-TTTT-AGCTCAAT
1 -GAGCTTA-C-TATTTTCAGCTCAAT
47762688 GAGCTTACTATTTATCAGCTCA
1 GAGCTTACTATTT-TCAGCTCA
47762710 TAAAGAGCTT
Statistics
Matches: 74, Mismatches: 5, Indels: 21
0.74 0.05 0.21
Matches are distributed among these distances:
21 3 0.04
22 21 0.28
23 31 0.42
24 17 0.23
25 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (23 bp):
GAGCTTACTATTTTCAGCTCAAT
Found at i:47766922 original size:52 final size:54
Alignment explanation
Indices: 47766843--47766949 Score: 173
Period size: 52 Copynumber: 2.0 Consensus size: 54
47766833 TTTTACAGAT
*
47766843 AGGTCCCTTTTAGGTGTTTTCATGAAAAATCGCC-TAAAATATGTTTATCTAAA
1 AGGTCCCTTTTAGGTGTTTTCATGAAAAATCACCATAAAATATGTTTATCTAAA
47766896 AGGT-CCTTTTAGGTGTTTTCATGAAAAATCACCTAATAAAATATGTTTATCTAA
1 AGGTCCCTTTTAGGTGTTTTCATGAAAAATCACC--ATAAAATATGTTTATCTAA
47766950 CATCTAATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
52 28 0.56
53 4 0.08
55 18 0.36
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (54 bp):
AGGTCCCTTTTAGGTGTTTTCATGAAAAATCACCATAAAATATGTTTATCTAAA
Found at i:47772755 original size:17 final size:17
Alignment explanation
Indices: 47772733--47772787 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 17
47772723 TAAACAAGTT
47772733 AGTTATACACATCATGA
1 AGTTATACACATCATGA
* *
47772750 AGTTAT-CAAATCAT-T
1 AGTTATACACATCATGA
47772765 AGTTATACACATCATGA
1 AGTTATACACATCATGA
*
47772782 AATTAT
1 AGTTAT
47772788 CAAATCAACA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 6 0.19
16 14 0.45
17 11 0.35
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.35
Consensus pattern (17 bp):
AGTTATACACATCATGA
Found at i:47772767 original size:32 final size:32
Alignment explanation
Indices: 47772731--47772794 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
47772721 ATTAAACAAG
*
47772731 TTAGTTATACACATCATGAAGTTATCAAATCA
1 TTAGTTATACACATCATGAAATTATCAAATCA
47772763 TTAGTTATACACATCATGAAATTATCAAATCA
1 TTAGTTATACACATCATGAAATTATCAAATCA
47772795 ACATAGATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (32 bp):
TTAGTTATACACATCATGAAATTATCAAATCA
Found at i:47772794 original size:16 final size:16
Alignment explanation
Indices: 47772733--47772794 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
47772723 TAAACAAGTT
*
47772733 AGTTATACACATCATGA
1 AGTTAT-CAAATCATGA
*
47772750 AGTTATCAAATCAT-T
1 AGTTATCAAATCATGA
*
47772765 AGTTATACACATCATGA
1 AGTTAT-CAAATCATGA
*
47772782 AATTATCAAATCA
1 AGTTATCAAATCA
47772795 ACATAGATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
15 6 0.16
16 20 0.54
17 11 0.30
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (16 bp):
AGTTATCAAATCATGA
Found at i:47782355 original size:17 final size:19
Alignment explanation
Indices: 47782329--47782365 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
47782319 TGTAAAACCC
47782329 ATGAGTATGAACT-TTGGT
1 ATGAGTATGAACTCTTGGT
47782347 ATGAG-ATGAACTCTTGGT
1 ATGAGTATGAACTCTTGGT
47782365 A
1 A
47782366 AGAATGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (19 bp):
ATGAGTATGAACTCTTGGT
Found at i:47785338 original size:43 final size:43
Alignment explanation
Indices: 47785287--47785479 Score: 166
Period size: 41 Copynumber: 4.6 Consensus size: 43
47785277 CAGGCCTTCG
47785287 AGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGGCTTTA
1 AGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGGCTTTA
* * ** **
47785330 AGCCTAGCAGGTTATAATGCCAGTGAGTTAATATTGGGCTTCG
1 AGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGGCTTTA
* * * * *
47785373 AGCCTAGCAGGC-GTAATGCCGGTGAATGAAT-TCAGACTTAA
1 AGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGGCTTTA
* ** *
47785414 AGTCTAGCAGGCT-TCGTGCCGGTGA--TAAAATTCAGG-TTTCA
1 AGCCTAGCAGGCTATAATGCCGGTGAGTTAATA-TCAGGCTTT-A
* *
47785455 AACCTAGCAGGCTA-ATTGCCGGTGA
1 AGCCTAGCAGGCTATAATGCCGGTGA
47785480 TTTGATATAA
Statistics
Matches: 118, Mismatches: 27, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 51 0.43
42 15 0.13
43 48 0.41
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (43 bp):
AGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGGCTTTA
Found at i:47787969 original size:18 final size:18
Alignment explanation
Indices: 47787946--47787982 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
47787936 ATATGGGTAA
47787946 ACTACACCCAAGATCACT
1 ACTACACCCAAGATCACT
47787964 ACTACACCCAAGATCACT
1 ACTACACCCAAGATCACT
47787982 A
1 A
47787983 AACTATTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.38, G:0.05, T:0.16
Consensus pattern (18 bp):
ACTACACCCAAGATCACT
Found at i:47790625 original size:13 final size:13
Alignment explanation
Indices: 47790604--47790657 Score: 60
Period size: 12 Copynumber: 4.4 Consensus size: 13
47790594 GAAAGTTCAC
*
47790604 AAATGTTTTATAA
1 AAATATTTTATAA
47790617 AAATATTTTAT-A
1 AAATATTTTATAA
*
47790629 AAATATTTTTTAA
1 AAATATTTTATAA
*
47790642 AAA-AATTTA-AA
1 AAATATTTTATAA
47790653 AAATA
1 AAATA
47790658 CATATTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 5 0.14
12 16 0.46
13 14 0.40
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (13 bp):
AAATATTTTATAA
Found at i:47804149 original size:43 final size:43
Alignment explanation
Indices: 47804097--47804296 Score: 283
Period size: 43 Copynumber: 4.7 Consensus size: 43
47804087 GTCCCAGAAA
* *
47804097 TGGTCTTACACGTAACCACATATCAATGCCAACATCCCAAACG
1 TGGTCTTACACGTAATCACATATCGATGCCAACATCCCAAACG
* * * *
47804140 TGGACTTACACGTAATCACATATTGATGCCAACATCCCAGACT
1 TGGTCTTACACGTAATCACATATCGATGCCAACATCCCAAACG
* *
47804183 TGGTCTTACACCTAATCACATATCGATGCCAGCATCCCAAACG
1 TGGTCTTACACGTAATCACATATCGATGCCAACATCCCAAACG
** * *
47804226 TGGTCTTATTCGTAATCACATATCGATGCCAACGTCCCAGACG
1 TGGTCTTACACGTAATCACATATCGATGCCAACATCCCAAACG
*
47804269 TGGTCTTACTCGTAATCACATATCGATG
1 TGGTCTTACACGTAATCACATATCGATG
47804297 TCACATATAT
Statistics
Matches: 138, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 138 1.00
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (43 bp):
TGGTCTTACACGTAATCACATATCGATGCCAACATCCCAAACG
Found at i:47804293 original size:86 final size:86
Alignment explanation
Indices: 47803999--47804296 Score: 307
Period size: 86 Copynumber: 3.5 Consensus size: 86
47803989 CGTACAATGT
* ** * *** * *
47803999 CAACGTCCCAGACATGGTCTTACATGCT-ATCTTATATTGATGCCATTGTCCCAGACAG-GGTCT
1 CAACGTCCCAGACATGGTCTTACACG-TAATCACATATCGATGCCAACATCCCAAAC-GTGGACT
* * *
47804062 TACATG-AATCAAATA-CGATAC
64 TACACGTAATCACATATCGATGC
* * * * *
47804083 CGATGTCCCAGAAATGGTCTTACACGTAACCACATATCAATGCCAACATCCCAAACGTGGACTTA
1 CAACGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAACATCCCAAACGTGGACTTA
*
47804148 CACGTAATCACATATTGATGC
66 CACGTAATCACATATCGATGC
* * * * *
47804169 CAACATCCCAGACTTGGTCTTACACCTAATCACATATCGATGCCAGCATCCCAAACGTGGTCTTA
1 CAACGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAACATCCCAAACGTGGACTTA
**
47804234 TTCGTAATCACATATCGATGC
66 CACGTAATCACATATCGATGC
* *
47804255 CAACGTCCCAGACGTGGTCTTACTCGTAATCACATATCGATG
1 CAACGTCCCAGACATGGTCTTACACGTAATCACATATCGATG
47804297 TCACATATAT
Statistics
Matches: 175, Mismatches: 35, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
83 2 0.01
84 50 0.29
85 8 0.05
86 115 0.66
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (86 bp):
CAACGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAACATCCCAAACGTGGACTTA
CACGTAATCACATATCGATGC
Found at i:47809067 original size:24 final size:24
Alignment explanation
Indices: 47809040--47809088 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
47809030 TGAATTTAAA
47809040 GTAATTAGGTATAAGGACTAAATT
1 GTAATTAGGTATAAGGACTAAATT
*
47809064 GTAATTAGGTATAATGACTAAATT
1 GTAATTAGGTATAAGGACTAAATT
47809088 G
1 G
47809089 CATATAGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (24 bp):
GTAATTAGGTATAAGGACTAAATT
Found at i:47809265 original size:9 final size:9
Alignment explanation
Indices: 47809251--47809280 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
47809241 TTAATGTTTA
47809251 ATTATATAT
1 ATTATATAT
47809260 ATTATATAT
1 ATTATATAT
47809269 ATTATATTAT
1 ATTATA-TAT
47809279 AT
1 AT
47809281 AATAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
ATTATATAT
Found at i:47812632 original size:8 final size:8
Alignment explanation
Indices: 47812621--47812645 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
47812611 GTGTGTGTAC
47812621 GTGAGAGA
1 GTGAGAGA
47812629 GTGAGAGA
1 GTGAGAGA
47812637 GTGAGAGA
1 GTGAGAGA
47812645 G
1 G
47812646 AGAAGTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.52, T:0.12
Consensus pattern (8 bp):
GTGAGAGA
Found at i:47813028 original size:6 final size:6
Alignment explanation
Indices: 47813017--47813045 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
47813007 ATAAGGGTCG
47813017 GGTTGA GGTTGA GGTTGA GGTTGA GGTTG
1 GGTTGA GGTTGA GGTTGA GGTTGA GGTTG
47813046 GGGATATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.52, T:0.34
Consensus pattern (6 bp):
GGTTGA
Found at i:47813070 original size:18 final size:18
Alignment explanation
Indices: 47813047--47813084 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
47813037 TTGAGGTTGG
47813047 GGATATGGATACGGGTAT
1 GGATATGGATACGGGTAT
* *
47813065 GGATATTGATATGGGTAT
1 GGATATGGATACGGGTAT
47813083 GG
1 GG
47813085 TGGCATGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.39, T:0.32
Consensus pattern (18 bp):
GGATATGGATACGGGTAT
Found at i:47813537 original size:15 final size:15
Alignment explanation
Indices: 47813517--47813553 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 15
47813507 CCTGAGGTAA
47813517 ACCACCGCCATTTTT
1 ACCACCGCCATTTTT
47813532 ACCACCG---TTTTT
1 ACCACCGCCATTTTT
47813544 ACCACCGCCA
1 ACCACCGCCA
47813554 CCTTGATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
12 12 0.63
15 7 0.37
ACGTcount: A:0.22, C:0.43, G:0.08, T:0.27
Consensus pattern (15 bp):
ACCACCGCCATTTTT
Found at i:47813875 original size:9 final size:9
Alignment explanation
Indices: 47813853--47813912 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
47813843 GATGACGAGG
47813853 ATCATCCAAC
1 ATCAT-CAAC
*
47813863 -TCATCACC
1 ATCATCAAC
*
47813871 ATCATCAAA
1 ATCATCAAC
*
47813880 ATCATCATC
1 ATCATCAAC
*
47813889 ATCATCAAG
1 ATCATCAAC
47813898 ATCA-CAATC
1 ATCATCAA-C
47813907 ATCATC
1 ATCATC
47813913 CAAGTCATCA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
8 6 0.15
9 32 0.82
10 1 0.03
ACGTcount: A:0.40, C:0.33, G:0.02, T:0.25
Consensus pattern (9 bp):
ATCATCAAC
Found at i:47813889 original size:6 final size:6
Alignment explanation
Indices: 47813863--47813940 Score: 50
Period size: 6 Copynumber: 12.5 Consensus size: 6
47813853 ATCATCCAAC
* ** **
47813863 TCATCA CCATCA TCAAAA TCATCA TCATCA TCAAGA TCA-CAA TCATCA
1 TCATCA TCATCA TCATCA TCATCA TCATCA TCATCA TCATC-A TCATCA
* *
47813911 TCCAAGTCA TCATCG TCATAA TCATCA TCA
1 T-C-A-TCA TCATCA TCATCA TCATCA TCA
47813941 CTGAAATCTT
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
6 45 0.83
7 3 0.06
8 2 0.04
9 4 0.07
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.27
Consensus pattern (6 bp):
TCATCA
Found at i:47813907 original size:18 final size:18
Alignment explanation
Indices: 47813853--47813940 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
47813843 GATGACGAGG
* * *
47813853 ATCATCCAACTCATCACC
1 ATCATCAAAATCATCATC
47813871 ATCATCAAAATCATCATC
1 ATCATCAAAATCATCATC
*
47813889 ATCATCAAGATCA-CAATC
1 ATCATCAAAATCATC-ATC
* *
47813907 ATCATCCAAGTCATCATC
1 ATCATCAAAATCATCATC
*
47813925 GTCAT---AATCATCATC
1 ATCATCAAAATCATCATC
47813940 A
1 A
47813941 CTGAAATCTT
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
15 9 0.16
17 1 0.02
18 47 0.81
19 1 0.02
ACGTcount: A:0.39, C:0.32, G:0.03, T:0.26
Consensus pattern (18 bp):
ATCATCAAAATCATCATC
Found at i:47814174 original size:3 final size:3
Alignment explanation
Indices: 47814166--47814203 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
47814156 CTGACCACCC
*
47814166 TTG TTG TTG TT- TTGG TTG TTG TTC TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TT-G TTG TTG TTG TTG TTG TTG TTG TT
47814204 TCCACCTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.87
4 2 0.06
ACGTcount: A:0.00, C:0.03, G:0.29, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:47814674 original size:12 final size:13
Alignment explanation
Indices: 47814653--47814681 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
47814643 CTAGAGAAAC
47814653 AAAAATGAGAGAG
1 AAAAATGAGAGAG
47814666 AAAAA-GAGAGAG
1 AAAAATGAGAGAG
47814678 AAAA
1 AAAA
47814682 TACTTGGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (13 bp):
AAAAATGAGAGAG
Found at i:47828416 original size:23 final size:23
Alignment explanation
Indices: 47828385--47828438 Score: 90
Period size: 24 Copynumber: 2.3 Consensus size: 23
47828375 CCCCAGCTTT
*
47828385 ATCTCATTTATTTTTCACAAATG
1 ATCTTATTTATTTTTCACAAATG
47828408 ATCTTATTTTATTTTTCACAAATG
1 ATCTTA-TTTATTTTTCACAAATG
47828432 ATCTTAT
1 ATCTTAT
47828439 CCTTTCTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 6 0.21
24 23 0.79
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.52
Consensus pattern (23 bp):
ATCTTATTTATTTTTCACAAATG
Found at i:47828423 original size:24 final size:24
Alignment explanation
Indices: 47828391--47828438 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
47828381 CTTTATCTCA
47828391 TTTATTTTTCACAAATGATCTTAT
1 TTTATTTTTCACAAATGATCTTAT
47828415 TTTATTTTTCACAAATGATCTTAT
1 TTTATTTTTCACAAATGATCTTAT
47828439 CCTTTCTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.54
Consensus pattern (24 bp):
TTTATTTTTCACAAATGATCTTAT
Found at i:47830606 original size:15 final size:16
Alignment explanation
Indices: 47830540--47830607 Score: 63
Period size: 16 Copynumber: 4.2 Consensus size: 16
47830530 ATGCGTTCTC
*
47830540 TATAACAATTATTT-T
1 TATAATAATTATTTAT
47830555 TATAATAA-TATTTCAT
1 TATAATAATTATTT-AT
47830571 TATAATAATTAAATTTAT
1 TATAATAATT--ATTTAT
47830589 TATAA-AATTGATTT-T
1 TATAATAATT-ATTTAT
47830604 TATA
1 TATA
47830608 TTTTATTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
14 5 0.11
15 12 0.26
16 13 0.28
17 5 0.11
18 7 0.15
19 4 0.09
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (16 bp):
TATAATAATTATTTAT
Found at i:47830642 original size:17 final size:17
Alignment explanation
Indices: 47830616--47830649 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47830606 TATTTTATTT
* *
47830616 TTTTCTTTTATATCAAC
1 TTTTCATTTATAACAAC
47830633 TTTTCATTTATAACAAC
1 TTTTCATTTATAACAAC
47830650 AATCATAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTCATTTATAACAAC
Found at i:47833497 original size:17 final size:17
Alignment explanation
Indices: 47833475--47833526 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 17
47833465 TAGTTTGAAG
47833475 AAAAATATTAAGCTATAAA
1 AAAAATATTAAGC--TAAA
* *
47833494 AAATGAAAATTAAGCAAAA
1 AAA--AATATTAAGCTAAA
47833513 AAAAATATTAAGCT
1 AAAAATATTAAGCT
47833527 TGATTAACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
17 9 0.33
19 9 0.33
21 9 0.33
ACGTcount: A:0.63, C:0.06, G:0.08, T:0.23
Consensus pattern (17 bp):
AAAAATATTAAGCTAAA
Found at i:47834469 original size:19 final size:20
Alignment explanation
Indices: 47834428--47834469 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
47834418 TTAATCATAT
* *
47834428 TTTATTAAATGAAAATAATA
1 TTTAATAAATGAAAATAACA
*
47834448 TTTAATAAAT-AAAATTACA
1 TTTAATAAATGAAAATAACA
47834467 TTT
1 TTT
47834470 GTAATAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
TTTAATAAATGAAAATAACA
Found at i:47835367 original size:21 final size:22
Alignment explanation
Indices: 47835335--47835378 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
47835325 AATTTAATTT
*
47835335 TTTTTTCTTTTAACTTTCTTTC
1 TTTTTTCTTTTAACTTTCATTC
*
47835357 TTTTTTC-TTTATCTTTCATTC
1 TTTTTTCTTTTAACTTTCATTC
47835378 T
1 T
47835379 CCTCTACTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTTTCTTTTAACTTTCATTC
Found at i:47839287 original size:20 final size:17
Alignment explanation
Indices: 47839266--47839298 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
47839256 AAAAATTATT
47839266 TATTT-ATTTTTTATAG
1 TATTTAATTTTTTATAG
47839282 TATTTAATTTTTTATAG
1 TATTTAATTTTTTATAG
47839299 AATATTGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TATTTAATTTTTTATAG
Found at i:47842337 original size:33 final size:34
Alignment explanation
Indices: 47842280--47842347 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 34
47842270 TTGTAATGGC
*
47842280 AGATATTCCCAGATTTTTCATTCCAGAAGTCAAA
1 AGATATTCCCAGATTTTTCATTCCACAAGTCAAA
* *
47842314 AGATATTCCCAGA-TTTTCTTTCCACAAGTTAAA
1 AGATATTCCCAGATTTTTCATTCCACAAGTCAAA
47842347 A
1 A
47842348 AGCTCAACTG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
33 18 0.58
34 13 0.42
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (34 bp):
AGATATTCCCAGATTTTTCATTCCACAAGTCAAA
Found at i:47842349 original size:34 final size:34
Alignment explanation
Indices: 47842280--47842349 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
47842270 TTGTAATGGC
* *
47842280 AGATATTCCCAGATTTTTCATTCCAGAAGTCAAA
1 AGATATTCCCAGATTTTTCATTCCACAAGTAAAA
*
47842314 AGATATTCCCAGA-TTTTCTTTCCACAAGTTAAAA
1 AGATATTCCCAGATTTTTCATTCCACAAG-TAAAA
47842348 AG
1 AG
47842350 CTCAACTGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 13 0.41
34 19 0.59
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (34 bp):
AGATATTCCCAGATTTTTCATTCCACAAGTAAAA
Found at i:47848839 original size:21 final size:23
Alignment explanation
Indices: 47848804--47848855 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
47848794 TTCCAGATTA
47848804 TTTCTCTCCTATTTCTCCTTTCC
1 TTTCTCTCCTATTTCTCCTTTCC
* *
47848827 TTTCTC-CCT-TTTCTTCTTTCT
1 TTTCTCTCCTATTTCTCCTTTCC
*
47848848 TTTTTCTC
1 TTTCTCTC
47848856 ACAGCAGCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 15 0.60
22 4 0.16
23 6 0.24
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTCTCTCCTATTTCTCCTTTCC
Found at i:47849148 original size:17 final size:17
Alignment explanation
Indices: 47849128--47849169 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
47849118 GAGATATTAG
47849128 GAGTCTTTCTTTATTTA
1 GAGTCTTTCTTTATTTA
47849145 GAGTCTTTCTTTATTTA
1 GAGTCTTTCTTTATTTA
47849162 GAGTCTTT
1 GAGTCTTT
47849170 ATTTTGGTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.17, C:0.12, G:0.14, T:0.57
Consensus pattern (17 bp):
GAGTCTTTCTTTATTTA
Found at i:47853905 original size:33 final size:34
Alignment explanation
Indices: 47853833--47853906 Score: 132
Period size: 34 Copynumber: 2.2 Consensus size: 34
47853823 TTGAATATTT
47853833 ATAAAATTTAAATAAATTGTTGTGATAATATAAA
1 ATAAAATTTAAATAAATTGTTGTGATAATATAAA
47853867 ATAAAATTTAAATAAATTGTTGTGAT-ATATAAA
1 ATAAAATTTAAATAAATTGTTGTGATAATATAAA
*
47853900 GTAAAAT
1 ATAAAAT
47853907 AATGTCATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
33 13 0.33
34 26 0.67
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (34 bp):
ATAAAATTTAAATAAATTGTTGTGATAATATAAA
Found at i:47860651 original size:28 final size:28
Alignment explanation
Indices: 47860620--47860676 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
47860610 ATTCGATGAC
*
47860620 AATCAATATTTTTCAATAACAATCATTT
1 AATCAATATTATTCAATAACAATCATTT
* * *
47860648 AATCATTATTATTCAATAGCAGTCATTT
1 AATCAATATTATTCAATAACAATCATTT
47860676 A
1 A
47860677 TTTATTCAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.40, C:0.14, G:0.04, T:0.42
Consensus pattern (28 bp):
AATCAATATTATTCAATAACAATCATTT
Found at i:47862177 original size:3 final size:3
Alignment explanation
Indices: 47862151--47862237 Score: 53
Period size: 3 Copynumber: 30.3 Consensus size: 3
47862141 TTATTTAATT
* * *
47862151 TAA TAA T-A TAA T-A TCAA TTA -AA TAA TAA TAA CAA TAA CAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
47862194 TAA TTA -AA T-A TAA -AA CT-A TAA TAA TAAA TAA TAA GAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TAA TAA TAA TAA
47862237 T
1 T
47862238 TTAATATATT
Statistics
Matches: 64, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
2 11 0.17
3 48 0.75
4 5 0.08
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:47862197 original size:21 final size:19
Alignment explanation
Indices: 47862171--47862237 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
47862161 ATATCAATTA
47862171 AATAATAATAACAATAACAAT
1 AATAATAATAA-AATAA-AAT
47862192 AATAAT--TAAATATAAAACT
1 AATAATAATAAA-ATAAAA-T
*
47862211 -ATAATAAT-AAATAATAAG
1 AATAATAATAAAATAA-AAT
47862229 AATAATAAT
1 AATAATAAT
47862238 TTAATATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
18 12 0.31
19 20 0.51
20 1 0.03
21 6 0.15
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.28
Consensus pattern (19 bp):
AATAATAATAAAATAAAAT
Found at i:47863860 original size:25 final size:24
Alignment explanation
Indices: 47863832--47863879 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
47863822 AATGCTAGAA
47863832 AATTTCTATAACAATTGCCTTTTAC
1 AATTT-TATAACAATTGCCTTTTAC
*
47863857 AATTTTGTAACAATTGCCTTTTA
1 AATTTTATAACAATTGCCTTTTA
47863880 TAATATCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (24 bp):
AATTTTATAACAATTGCCTTTTAC
Found at i:47867113 original size:8 final size:8
Alignment explanation
Indices: 47867100--47867126 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
47867090 GTTTAAAATG
47867100 TTTATAAA
1 TTTATAAA
47867108 TTTATAAA
1 TTTATAAA
47867116 TTTATAAA
1 TTTATAAA
47867124 TTT
1 TTT
47867127 TTTTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTATAAA
Found at i:47877175 original size:44 final size:46
Alignment explanation
Indices: 47877125--47877213 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 46
47877115 TACAACATTT
47877125 ATTCCATTCAACCAAACACA-AAAATT-CT-ATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACA-ATAAAATTACTGATTACAGCTCTATTCC
* * *
47877169 ATTCCATTCAACTAAACAATTAAATTATTGATTACAGCTCTATTC
1 ATTCCATTCAACCAAACAATAAAATTACTGATTACAGCTCTATTC
47877214 TATTACAGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
43 1 0.03
44 22 0.56
45 1 0.03
46 15 0.38
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAATAAAATTACTGATTACAGCTCTATTCC
Found at i:47877220 original size:16 final size:16
Alignment explanation
Indices: 47877199--47877253 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
47877189 TAAATTATTG
47877199 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCT
* *
47877215 ATTACAGTTCTATTCA
1 ATTACAGCTCTATTCT
47877231 ATTACAGC-CTTATTCT
1 ATTACAGCTC-TATTCT
47877247 ATTACAG
1 ATTACAG
47877254 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 1 0.03
16 33 0.97
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCT
Found at i:47878703 original size:15 final size:16
Alignment explanation
Indices: 47878676--47878705 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47878666 TTGAAATTGT
47878676 TATAAATTTTTAAAAA
1 TATAAATTTTTAAAAA
47878692 TATAAA-TTTTAAAA
1 TATAAATTTTTAAAA
47878706 TTTTTATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATAAATTTTTAAAAA
Found at i:47879455 original size:67 final size:70
Alignment explanation
Indices: 47879372--47879504 Score: 200
Period size: 70 Copynumber: 1.9 Consensus size: 70
47879362 ATAAACAATA
* **
47879372 TAATGGTTTTGCCTTTTAAC-TTA-ATGA-GTAAATATTTATCAAAACAACGTAGTTTTGCCTTT
1 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAATATTTATCAAAACAACGTAGTTTTGCCTTT
47879434 TAATT
66 TAATT
* *
47879439 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAATGTTTATCAAAACAGCGTAGTTTTGCCTTT
1 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAATATTTATCAAAACAACGTAGTTTTGCCTTT
47879504 T
66 T
47879505 CTTATTCGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
67 19 0.33
68 3 0.05
69 2 0.03
70 34 0.59
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (70 bp):
TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAATATTTATCAAAACAACGTAGTTTTGCCTTT
TAATT
Found at i:47893671 original size:40 final size:43
Alignment explanation
Indices: 47893614--47893705 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 43
47893604 TATATAGAGT
* **
47893614 ACGCCAT-AAAGTCTAACATAATGTGACAAAGGCTAACA-AA-
1 ACGCCATAAAAGTCTAACAAAATGCCACAAAGGCTAACAGAAC
* *
47893654 ATGCCATAAAAG-CTAACAAAATGCCATAAAGGCTAACAGAAC
1 ACGCCATAAAAGTCTAACAAAATGCCACAAAGGCTAACAGAAC
47893696 ACGCCATAAA
1 ACGCCATAAA
47893706 GGCCAAATCA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
40 28 0.65
41 6 0.14
42 9 0.21
ACGTcount: A:0.49, C:0.22, G:0.14, T:0.15
Consensus pattern (43 bp):
ACGCCATAAAAGTCTAACAAAATGCCACAAAGGCTAACAGAAC
Found at i:47893704 original size:22 final size:21
Alignment explanation
Indices: 47893641--47893745 Score: 101
Period size: 20 Copynumber: 5.0 Consensus size: 21
47893631 ATAATGTGAC
47893641 AAAGGCTAACA-AAATGCCAT
1 AAAGGCTAACAGAAATGCCAT
*
47893661 AAAAGCTAACA-AAATGCCAT
1 AAAGGCTAACAGAAATGCCAT
*
47893681 AAAGGCTAACAGAACACGCCAT
1 AAAGGCTAACAGAA-ATGCCAT
* *
47893703 AAAGGCCAAATCAG-AATAGATCAT
1 AAAGG-CTAA-CAGAAAT-G-CCAT
47893727 AAAGGCTAACAG-AATGCCA
1 AAAGGCTAACAGAAATGCCA
47893746 CCCAGGCACC
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
20 31 0.44
21 3 0.04
22 18 0.25
23 8 0.11
24 11 0.15
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (21 bp):
AAAGGCTAACAGAAATGCCAT
Found at i:47898215 original size:22 final size:22
Alignment explanation
Indices: 47898187--47898295 Score: 85
Period size: 22 Copynumber: 5.0 Consensus size: 22
47898177 TTGTATGGGT
* *
47898187 TCAACACTTTAATTCTCTTTGA
1 TCAACACTTCAATGCTCTTTGA
47898209 TCAACACTTCAATGCTCTTTGA
1 TCAACACTTCAATGCTCTTTGA
* * *
47898231 T-AAGCATTTCAATACTCTTTGC
1 TCAA-CACTTCAATGCTCTTTGA
* * * * *
47898253 TTAGCACTTCAGTGCTCTCTGT
1 TCAACACTTCAATGCTCTTTGA
* * *
47898275 TTAGCACTTCGATGCTCTTTG
1 TCAACACTTCAATGCTCTTTG
47898296 GTATGGTGTA
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
21 2 0.03
22 68 0.96
23 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (22 bp):
TCAACACTTCAATGCTCTTTGA
Found at i:47903713 original size:19 final size:19
Alignment explanation
Indices: 47903685--47903732 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
47903675 AGCTAATTTT
*
47903685 GGTATTGGTAAATTTCAGA
1 GGTATCGGTAAATTTCAGA
** *
47903704 GGTATCGGTACCTTTCAGG
1 GGTATCGGTAAATTTCAGA
47903723 GGTATCGGTA
1 GGTATCGGTA
47903733 CCTATTTCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.23, C:0.12, G:0.31, T:0.33
Consensus pattern (19 bp):
GGTATCGGTAAATTTCAGA
Found at i:47903733 original size:19 final size:19
Alignment explanation
Indices: 47903697--47903735 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
47903687 TATTGGTAAA
47903697 TTTCAGAGGTATCGGTACC
1 TTTCAGAGGTATCGGTACC
*
47903716 TTTCAGGGGTATCGGTACC
1 TTTCAGAGGTATCGGTACC
47903735 T
1 T
47903736 ATTTCAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.18, C:0.21, G:0.28, T:0.33
Consensus pattern (19 bp):
TTTCAGAGGTATCGGTACC
Found at i:47905928 original size:35 final size:35
Alignment explanation
Indices: 47905878--47905948 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
47905868 TGGTAAGGAG
*
47905878 TTAACTTGCTAGAGGTTTGTGTTTGAATCTCTGCA
1 TTAACTTGCTAGAGGTTTGTGATTGAATCTCTGCA
*
47905913 TTAACTTGCTGGAGGTTTGTGATTGAATCTCTGCA
1 TTAACTTGCTAGAGGTTTGTGATTGAATCTCTGCA
47905948 T
1 T
47905949 GAGTAAGGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.20, C:0.14, G:0.24, T:0.42
Consensus pattern (35 bp):
TTAACTTGCTAGAGGTTTGTGATTGAATCTCTGCA
Found at i:47914592 original size:92 final size:92
Alignment explanation
Indices: 47914435--47914615 Score: 299
Period size: 92 Copynumber: 2.0 Consensus size: 92
47914425 TTTGACATGA
* * * * *
47914435 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTTCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
47914500 CATGGTCTTATTCATTTCATATCACGT
66 CATGGTCTTATTCATTTCATATCACGT
* *
47914527 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
47914592 CATGGTCTTATTCATTTCATATCA
66 CATGGTCTTATTCATTTCATATCA
47914616 GAGAGTACAC
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 82 1.00
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (92 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATATCACGT
Found at i:47914609 original size:46 final size:46
Alignment explanation
Indices: 47914430--47914609 Score: 261
Period size: 46 Copynumber: 3.9 Consensus size: 46
47914420 TTATCTTTGA
* * * * * *
47914430 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* * *
47914476 CATGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* *
47914522 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
47914568 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTC
47914610 ATATCAGAGA
Statistics
Matches: 119, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 119 1.00
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
Found at i:47917076 original size:29 final size:30
Alignment explanation
Indices: 47917019--47917086 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
47917009 TCCCCTTAAA
* * * *
47917019 ATATTTGCACTATTAGTCCTTTAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
47917049 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
47917078 AGTATTTAC
1 A-TATTTAC
47917087 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:47920490 original size:29 final size:29
Alignment explanation
Indices: 47920452--47920508 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
47920442 ATGGAAGAGG
* *
47920452 TGAAGAACTTGTTCGTTGAGAGTTCGTGA
1 TGAAGAACTTGTTCATTGAGAATTCGTGA
47920481 TGAAGAACTTGTTCATTGAGAATTCGTG
1 TGAAGAACTTGTTCATTGAGAATTCGTG
47920509 TCAATGTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (29 bp):
TGAAGAACTTGTTCATTGAGAATTCGTGA
Found at i:47922332 original size:15 final size:16
Alignment explanation
Indices: 47922296--47922333 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
47922286 TTATATCCTT
*
47922296 AATTTTTAAACATTAG
1 AATTTTTAAACATTAA
47922312 AA-TTTTAAACA-TAA
1 AATTTTTAAACATTAA
47922326 AATTTTTA
1 AATTTTTA
47922334 TAGGATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 4 0.20
15 14 0.70
16 2 0.10
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (16 bp):
AATTTTTAAACATTAA
Found at i:47922364 original size:20 final size:20
Alignment explanation
Indices: 47922339--47922381 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
47922329 TTTTATAGGA
**
47922339 TAATATAACGTTAAAATAAT
1 TAATATAAAATTAAAATAAT
*
47922359 TAATATAAAATTGAAATAAT
1 TAATATAAAATTAAAATAAT
47922379 TAA
1 TAA
47922382 AAATATTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (20 bp):
TAATATAAAATTAAAATAAT
Found at i:47927032 original size:2 final size:2
Alignment explanation
Indices: 47927025--47927049 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
47927015 TGAAGTTTTA
47927025 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
47927050 AACTATGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47927276 original size:93 final size:93
Alignment explanation
Indices: 47927117--47927308 Score: 366
Period size: 93 Copynumber: 2.1 Consensus size: 93
47927107 GTATAATGCA
*
47927117 CTTTTGTGGTGGATGCAATAATCTTTAGATATTTTATTAATTTGGAAGTTTATGAAAATTTTGAC
1 CTTTTTTGGTGGATGCAATAATCTTTAGATATTTTATTAATTTGGAAGTTTATGAAAATTTTGAC
47927182 ATGAGCCTAATGATTATTGTTGTTACAG
66 ATGAGCCTAATGATTATTGTTGTTACAG
*
47927210 CTTTTTTGGTGGATGCAATAGTCTTTAGATATTTTATTAATTTGGAAGTTTATGAAAATTTTGAC
1 CTTTTTTGGTGGATGCAATAATCTTTAGATATTTTATTAATTTGGAAGTTTATGAAAATTTTGAC
47927275 ATGAGCCTAATGATTATTGTTGTTACAG
66 ATGAGCCTAATGATTATTGTTGTTACAG
47927303 CTTTTT
1 CTTTTT
47927309 ATATGAACCA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 97 1.00
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.46
Consensus pattern (93 bp):
CTTTTTTGGTGGATGCAATAATCTTTAGATATTTTATTAATTTGGAAGTTTATGAAAATTTTGAC
ATGAGCCTAATGATTATTGTTGTTACAG
Found at i:47942074 original size:13 final size:13
Alignment explanation
Indices: 47942056--47942082 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47942046 GGAGTAATCG
47942056 CACACAGGCGTGT
1 CACACAGGCGTGT
47942069 CACACAGGCGTGT
1 CACACAGGCGTGT
47942082 C
1 C
47942083 CCTACTGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.30, T:0.15
Consensus pattern (13 bp):
CACACAGGCGTGT
Found at i:47948655 original size:15 final size:14
Alignment explanation
Indices: 47948608--47948655 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
47948598 AACATCATGT
47948608 AAAAGAAAAGAAGA
1 AAAAGAAAAGAAGA
* *
47948622 AAAGGCAAAAGAAAAA
1 AAAAG-AAAAG-AAGA
47948638 AAAAGAAAAGAGAGA
1 AAAAGAAAAGA-AGA
47948653 AAA
1 AAA
47948656 GAGGCAAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
14 5 0.19
15 15 0.56
16 7 0.26
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAGAAGA
Found at i:47948803 original size:6 final size:6
Alignment explanation
Indices: 47948751--47948789 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
47948741 AAAAAGAAAA
47948751 TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT TGA
1 TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT TGA
47948790 AAAAGAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (6 bp):
TGAGAT
Found at i:47950669 original size:23 final size:23
Alignment explanation
Indices: 47950641--47950687 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
47950631 AGTATGTTTG
47950641 CTTTGCCCAATTGAGATTATTGC
1 CTTTGCCCAATTGAGATTATTGC
47950664 CTTTGCCCAATTGAGATTATTGC
1 CTTTGCCCAATTGAGATTATTGC
47950687 C
1 C
47950688 ATATGATCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (23 bp):
CTTTGCCCAATTGAGATTATTGC
Found at i:47951661 original size:48 final size:48
Alignment explanation
Indices: 47951607--47951826 Score: 176
Period size: 48 Copynumber: 4.6 Consensus size: 48
47951597 TGAGATCCCA
* *
47951607 TGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGATCTCG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGATCTAG
* * * * * * * *
47951655 TATAAGACTATGTTTGGGACATGGTATCGACATTGATATGCG-TGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGAT-CTAG
* * * * * *
47951703 TGTAATACCATGTTTGGGACATGGCATTGGCCTCGACG-TGTGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGA-GATGAGATCTAG
* * * * * *
47951751 TGTAAGACCATATCTGGAACATGGCATCGGTATCGATATGTA-ATTTCG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATG-AGATCTAG
* *
47951799 TGTAAGACCATGTCTAGGACATAGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
47951827 ATTATGGGAC
Statistics
Matches: 130, Mismatches: 37, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
47 1 0.01
48 129 0.99
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGATCTAG
Found at i:47951789 original size:96 final size:96
Alignment explanation
Indices: 47951607--47951825 Score: 217
Period size: 96 Copynumber: 2.3 Consensus size: 96
47951597 TGAGATCCCA
* * * * *
47951607 TGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGATCTCGTATAAGACTATGTTTGG
1 TGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGCTAGTATAAGACCATATCTGG
* * *
47951672 GACATGGTATCGACATTGATATGCGTGCTAG
66 AACATGGCATCGACATCGATATGCGTGCTAG
* * * * *
47951703 TGTAATACCATGTTTGGGACATGGCATTGGCCTCGACG-TGTGAGCTAGTGTAAGACCATATCTG
1 TGTAAGACCATGTCTGGGACATGGCATTGGCATCGA-GATGAGAGCTAGTATAAGACCATATCTG
** ** * *
47951767 GAACATGGCATCGGTATCGATATGTAAT-TTCG
65 GAACATGGCATCGACATCGATATG-CGTGCTAG
* *
47951799 TGTAAGACCATGTCTAGGACATAGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
47951826 CATTATGGGA
Statistics
Matches: 98, Mismatches: 23, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
96 96 0.98
97 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (96 bp):
TGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGCTAGTATAAGACCATATCTGG
AACATGGCATCGACATCGATATGCGTGCTAG
Found at i:47961283 original size:39 final size:40
Alignment explanation
Indices: 47961183--47961407 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
47961173 TTGAATGATG
* * * *
47961183 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
47961223 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47961263 TCCGTGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47961302 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
47961342 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
47961383 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47961408 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47964359 original size:21 final size:20
Alignment explanation
Indices: 47964332--47964380 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
47964322 AATAGAAACT
*
47964332 ATGAATGAC-AGGAAATTGTC
1 ATGAATGACAAGG-AATTGAC
47964352 AGTGAATGACAAGGAATTGAC
1 A-TGAATGACAAGGAATTGAC
47964373 ATGAATGA
1 ATGAATGA
47964381 TTCTATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 15 0.58
22 3 0.12
ACGTcount: A:0.43, C:0.08, G:0.27, T:0.22
Consensus pattern (20 bp):
ATGAATGACAAGGAATTGAC
Found at i:47971371 original size:19 final size:20
Alignment explanation
Indices: 47971326--47971395 Score: 108
Period size: 19 Copynumber: 3.5 Consensus size: 20
47971316 TAGCTCTTAT
47971326 GAGCTTCTGTTCAGCTCTTAC
1 GAGCTTCTGTTCAGCTCTT-C
47971347 GAGCTTCTGTTCAGCTCTT-
1 GAGCTTCTGTTCAGCTCTTC
*
47971366 GAGCTTCTGTTTAGCT-TTC
1 GAGCTTCTGTTCAGCTCTTC
47971385 GAGCTTCTGTT
1 GAGCTTCTGTT
47971396 GGCATATTCG
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
18 2 0.04
19 26 0.55
21 19 0.40
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.43
Consensus pattern (20 bp):
GAGCTTCTGTTCAGCTCTTC
Found at i:47971593 original size:21 final size:19
Alignment explanation
Indices: 47971567--47971614 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
47971557 AATAGATGTT
* *
47971567 ATGAATGACCGGAAATTGTC
1 ATGAATGACAGG-AATTGAC
47971587 AATGAATGACAGGAATTGAC
1 -ATGAATGACAGGAATTGAC
47971607 ATGAATGA
1 ATGAATGA
47971615 TTTTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.32
20 6 0.24
21 11 0.44
ACGTcount: A:0.42, C:0.10, G:0.25, T:0.23
Consensus pattern (19 bp):
ATGAATGACAGGAATTGAC
Found at i:47974138 original size:93 final size:93
Alignment explanation
Indices: 47974029--47974201 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
47974019 CGCCCATAAG
*
47974029 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
*
47974094 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAATTCGGATGCCTAGTTACATTTCA
* *
47974122 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
47974187 ACGAATTCGGATGCC
66 ACGAATTCGGATGCC
47974202 CAAATATCCT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
ACGAATTCGGATGCCTAGTTACATTTCA
Found at i:47974197 original size:46 final size:46
Alignment explanation
Indices: 47974022--47974197 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
47974012 TGTAACCCGC
* * *
47974022 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTAT
* * * *
47974068 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGT-T
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGTAT
* *
47974114 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTAT
* *
47974161 CCATAAGTGAACTCGGACTCAACTCAACGAATTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
47974198 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.02
46 68 0.63
47 36 0.33
48 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTAT
Found at i:47974299 original size:38 final size:38
Alignment explanation
Indices: 47974257--47974329 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
47974247 TCGTACTCCT
* *
47974257 TTACCATTCTCCTTGGATTACTAATGACGATACTTTGG
1 TTACCATTCTCCTTGGAATACCAATGACGATACTTTGG
47974295 TTACCATTCTCCTTGGAATACCAATGACGATACTT
1 TTACCATTCTCCTTGGAATACCAATGACGATACTT
47974330 CGGTAGTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (38 bp):
TTACCATTCTCCTTGGAATACCAATGACGATACTTTGG
Found at i:47980976 original size:25 final size:25
Alignment explanation
Indices: 47980942--47981003 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
47980932 ATTGACTCCT
*
47980942 TTAAAAATTATAAAGATATAAACTA
1 TTAAAAATTATAAAAATATAAACTA
47980967 TTAAAAATTATAAAAATATAAACTA
1 TTAAAAATTATAAAAATATAAACTA
47980992 TTAAAAATTATA
1 TTAAAAATTATA
47981004 CTTTGCCACT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (25 bp):
TTAAAAATTATAAAAATATAAACTA
Found at i:47984097 original size:9 final size:9
Alignment explanation
Indices: 47984080--47984116 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
47984070 TGAGTTTTCG
47984080 AATTCGAAT
1 AATTCGAAT
*
47984089 AACTCGAAT
1 AATTCGAAT
47984098 AATTCGAAT
1 AATTCGAAT
47984107 AATTCGAAT
1 AATTCGAAT
47984116 A
1 A
47984117 TCAAACAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:47984347 original size:19 final size:20
Alignment explanation
Indices: 47984318--47984357 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
47984308 AAAAACCCTT
* *
47984318 AAAACTTTTTATTTTCTCCC
1 AAAACTTTTTACTCTCTCCC
47984338 AAAA-TTTTTACTCTCTCCC
1 AAAACTTTTTACTCTCTCCC
47984357 A
1 A
47984358 CTTTCTCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAACTTTTTACTCTCTCCC
Found at i:47984535 original size:19 final size:20
Alignment explanation
Indices: 47984499--47984536 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
47984489 TTATTGCCCA
* *
47984499 AAACTTTTTATTTTTCACCT
1 AAACTTTTTACTTCTCACCT
47984519 AAAC-TTTTACTTCTCACC
1 AAACTTTTTACTTCTCACC
47984537 CTTTATTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.47
Consensus pattern (20 bp):
AAACTTTTTACTTCTCACCT
Found at i:47996384 original size:41 final size:41
Alignment explanation
Indices: 47996339--47996423 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
47996329 CTTTGTCTTC
*
47996339 TTTGTAACATTTCCAAATTCGGCCATAACGTCTAGGCTGGG
1 TTTGTAACATTTCCAAATTCGGCCATAACGTCTAGGCCGGG
* *
47996380 TTTGTAACATTTTCAAATTCGGCCATAATGTCTAGGCCGGG
1 TTTGTAACATTTCCAAATTCGGCCATAACGTCTAGGCCGGG
47996421 TTT
1 TTT
47996424 AAGGTGTTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (41 bp):
TTTGTAACATTTCCAAATTCGGCCATAACGTCTAGGCCGGG
Found at i:48000613 original size:3 final size:3
Alignment explanation
Indices: 48000605--48000657 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
48000595 AAATGGATAG
48000605 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
48000653 AAT AA
1 AAT AA
48000658 ACTATATTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:48003412 original size:493 final size:488
Alignment explanation
Indices: 48002491--48003434 Score: 1530
Period size: 493 Copynumber: 1.9 Consensus size: 488
48002481 TCAAATGTTT
*
48002491 TGTAACACCCCAAACCCGGCCTAAACGTTATGACAGAATCAAGCTGCGTCACATGAGAGTACTTT
1 TGTAACACCCCAAACCCGGCCTAAACGTTATGACAGAATCAAGCGGCGTCACATGAGAGTACTTT
* * *
48002556 TAGGGAACCCTTTTAGAAAACCTTATCAAGTGAAAAATCGTGAAGTTTATTATCTTTACTTAAGT
66 TAGGAAACCCTTTTAAAAAACCTTATCAAGTGAAAAATCGTGAAGTTTATTATCTTTACTTAAAT
* * * * *
48002621 TGGGAAATCTCTCTACCAATTATTACGTGAAAACATTTAATTAAAAGCTAAACCTTCGTTAATTC
131 CGGGAAATCTCTATACCAATTATTACGTGAAAACATTTAATTAAAAGCTAAAACATCATTAATTC
*
48002686 ATAAATAAAAAATTTAACAATTTAAAATCCCAAAATAAACCCAAGAATAGTTTGAGCCCAAATAC
196 ATAAATAAAAAATTTAACAATTTAAAATCCCAAAATAAACCCAAGAATAGTTCGAGCCCAAATAC
*
48002751 ATATTAATCCCAAAACATATATTTAAGTAAAGCAGGCAAAATAAAGTGTTACACAAAAATCCATA
261 ATATTAATCCCAAAACATATATTTAAGTAAAGCAGGCAAAATAAAGTGTAACACAAAAATCCATA
* * *
48002816 AATGTCTACCAGTGGTTACCATCGAGCCCTCCGTAACACCGATCTATCTACTGCTAAGGATTACC
326 AATGTCTACCAGTGGTCACCATCGAGCCCTCCATAACACCGATCCATCTACTGCTAAGGATTACC
48002881 TGACAAACAAAATAAACAAAGGGGTGAGTTTTCGCAAACTCAGTGTGTACATCCCCACAAATAGT
391 TGACAAACAAAATAAACAAAGGGGTGAGTTTTCGCAAACTCAGTGTGTACATCCCCACAAATAGT
48002946 CGAGTTTTGAACTCGGGCTCTGATACCACTAAA
456 CGAGTTTTGAACTCGGGCTCTGATACCACTAAA
* * * * * ** *
48002979 TGTAACACCCTAAACTCGGCCTAGACGTTATGGCCGAATCTGGCGGCGTCACATTAGAGTACTTT
1 TGTAACACCCCAAACCCGGCCTAAACGTTATGACAGAATCAAGCGGCGTCACATGAGAGTACTTT
**
48003044 TAGGAAACCCTTTTAAAAAACCTTATCAAGTGAAAAATCGTTCAGTTTATTATCTTTACTTAAAT
66 TAGGAAACCCTTTTAAAAAACCTTATCAAGTGAAAAATCGTGAAGTTTATTATCTTTACTTAAAT
* * *
48003109 CGGGAAATCTCTATTCCAATTATTATGTGAAAACATTTCATTAACGCGAAAGCTAAAACATCATT
131 CGGGAAATCTCTATACCAATTATTACGTGAAAACATTTAATT-A----AAAGCTAAAACATCATT
48003174 AATTCATAAATAAAAAATTTAACAATTTAAAATCCCAAAATAAACCCAAGAATAGTTCGAGCCCA
191 AATTCATAAATAAAAAATTTAACAATTTAAAATCCCAAAATAAACCCAAGAATAGTTCGAGCCCA
*
48003239 AATACATATTAATCCCAAAACATATATTTAAGTAAAGCATGCAAAATAAAGTGTAACACAAAAAT
256 AATACATATTAATCCCAAAACATATATTTAAGTAAAGCAGGCAAAATAAAGTGTAACACAAAAAT
* * * *
48003304 CCGA-AAATGTCTACCAGTGGTCACCATCGAGTCCTCTATCACACCGATCCATCTACTGCTGAGG
321 CC-ATAAATGTCTACCAGTGGTCACCATCGAGCCCTCCATAACACCGATCCATCTACTGCTAAGG
*
48003368 ATTATCTGACAAACAAAATAAACAAAGGGGTGAGTTTTCGCAAACTCAGTGTGTACATCCCCACA
385 ATTACCTGACAAACAAAATAAACAAAGGGGTGAGTTTTCGCAAACTCAGTGTGTACATCCCCACA
48003433 AA
450 AA
48003435 CAGCATGCAT
Statistics
Matches: 417, Mismatches: 33, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
488 153 0.37
489 1 0.00
493 262 0.63
494 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.27
Consensus pattern (488 bp):
TGTAACACCCCAAACCCGGCCTAAACGTTATGACAGAATCAAGCGGCGTCACATGAGAGTACTTT
TAGGAAACCCTTTTAAAAAACCTTATCAAGTGAAAAATCGTGAAGTTTATTATCTTTACTTAAAT
CGGGAAATCTCTATACCAATTATTACGTGAAAACATTTAATTAAAAGCTAAAACATCATTAATTC
ATAAATAAAAAATTTAACAATTTAAAATCCCAAAATAAACCCAAGAATAGTTCGAGCCCAAATAC
ATATTAATCCCAAAACATATATTTAAGTAAAGCAGGCAAAATAAAGTGTAACACAAAAATCCATA
AATGTCTACCAGTGGTCACCATCGAGCCCTCCATAACACCGATCCATCTACTGCTAAGGATTACC
TGACAAACAAAATAAACAAAGGGGTGAGTTTTCGCAAACTCAGTGTGTACATCCCCACAAATAGT
CGAGTTTTGAACTCGGGCTCTGATACCACTAAA
Found at i:48003647 original size:40 final size:39
Alignment explanation
Indices: 48003555--48003653 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 39
48003545 ACTATCTCCG
* *
48003555 TCCAACCCAACACA-CTATGTGGGGATAAAATCGACCCA
1 TCCAACCCTACACACCTATATGGGGATAAAATCGACCCA
* ** * *
48003593 CCCATTCCTGCACACCGTATATGGGGATATAATCGACCCA
1 TCCAACCCTACACACC-TATATGGGGATAAAATCGACCCA
48003633 TCCAACCCTACACACCATATA
1 TCCAACCCTACACACC-TATA
48003654 GTACCGTATC
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
38 9 0.19
39 1 0.02
40 37 0.79
ACGTcount: A:0.33, C:0.34, G:0.13, T:0.19
Consensus pattern (39 bp):
TCCAACCCTACACACCTATATGGGGATAAAATCGACCCA
Found at i:48011638 original size:30 final size:30
Alignment explanation
Indices: 48011602--48011662 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
48011592 TCCTTAACTC
48011602 AAACTTTTGAATAATTACAATTTTGCCCCT
1 AAACTTTTGAATAATTACAATTTTGCCCCT
* * *
48011632 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAATAATTACAATTTTGCCCCT
48011662 A
1 A
48011663 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTTGAATAATTACAATTTTGCCCCT
Found at i:48014300 original size:40 final size:38
Alignment explanation
Indices: 48014229--48014307 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 38
48014219 ACGCCATGTG
* *
48014229 GGGATAAAATCGACCCACCCATCCCTGCACACCGTATATA
1 GGGATAAAATCGACCCACCCAACCCTACACA-C-TATATA
* * *
48014269 GGGATATAATCGACCCATCTAACCCTACACACTATATA
1 GGGATAAAATCGACCCACCCAACCCTACACACTATATA
48014307 G
1 G
48014308 TACCGCATCG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 7 0.21
39 1 0.03
40 26 0.76
ACGTcount: A:0.34, C:0.32, G:0.14, T:0.20
Consensus pattern (38 bp):
GGGATAAAATCGACCCACCCAACCCTACACACTATATA
Found at i:48021079 original size:24 final size:25
Alignment explanation
Indices: 48021046--48021093 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
48021036 TAAGAAAGTG
48021046 GTTACAAGAAGATAAAAGGTGAAAT
1 GTTACAAGAAGATAAAAGGTGAAAT
*
48021071 GTTA-AAGAAGTTAAAAGGTGAAA
1 GTTACAAGAAGATAAAAGGTGAAA
48021094 GGTAGAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.52, C:0.02, G:0.25, T:0.21
Consensus pattern (25 bp):
GTTACAAGAAGATAAAAGGTGAAAT
Found at i:48030043 original size:18 final size:18
Alignment explanation
Indices: 48030011--48030046 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48030001 ATTTGTGATC
*
48030011 AAAATTGAAGGTGAAAGT
1 AAAATTGAAAGTGAAAGT
*
48030029 AAAATTGAAATTGAAAGT
1 AAAATTGAAAGTGAAAGT
48030047 GATATGAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.25
Consensus pattern (18 bp):
AAAATTGAAAGTGAAAGT
Found at i:48040707 original size:44 final size:42
Alignment explanation
Indices: 48040636--48040782 Score: 138
Period size: 44 Copynumber: 3.4 Consensus size: 42
48040626 ATATGTGTTA
**
48040636 TCGTGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTATGATT
1 TCGTGTAAGACCACGTCTGAAACGTTGGCATCGTA-TT-TGATT
*
48040679 TACGTGTAAGACCACGTCTGAAATGTTGGCATCGTATTTGATT
1 T-CGTGTAAGACCACGTCTGAAACGTTGGCATCGTATTTGATT
** * *
48040722 TCGTGTAAGACCTTGTTTGGGATA-G-TGGCATCGATATTTGATT
1 TCGTGTAAGACCACGTCT--GAAACGTTGGCATCG-TATTTGATT
* *
48040765 ACATGTAAGACCACGTCT
1 TCGTGTAAGACCACGTCT
48040783 AGGACATTTG
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
42 22 0.25
43 30 0.34
44 34 0.39
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGAAACGTTGGCATCGTATTTGATT
Found at i:48055712 original size:47 final size:46
Alignment explanation
Indices: 48055658--48055819 Score: 209
Period size: 47 Copynumber: 3.5 Consensus size: 46
48055648 CTAAGTTGCC
* * * * * *
48055658 TAAACTTAGGACACATTAAGTAGCT-ATATTAACTAAAACATATTAAA
1 TAAACTTAAGACA-ATTAAATAGCTGA-ACTAATTAGAACACATTAAA
*
48055705 TAAACTTAGGACATATTAAATAGCTGAACTAATTAGAACACATTAAA
1 TAAACTTAAGACA-ATTAAATAGCTGAACTAATTAGAACACATTAAA
*
48055752 TAAACTTAAGACAATTTAAATTGCTGAACTAATTAGAACACATTAAA
1 TAAACTTAAGACAA-TTAAATAGCTGAACTAATTAGAACACATTAAA
48055799 TAAACTTAAGACAATTAAATA
1 TAAACTTAAGACAATTAAATA
48055820 CTTAAACTAA
Statistics
Matches: 104, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
46 7 0.07
47 96 0.92
48 1 0.01
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (46 bp):
TAAACTTAAGACAATTAAATAGCTGAACTAATTAGAACACATTAAA
Found at i:48055749 original size:27 final size:27
Alignment explanation
Indices: 48055710--48055800 Score: 81
Period size: 27 Copynumber: 3.6 Consensus size: 27
48055700 TTAAATAAAC
* *
48055710 TTAGGACATATTAAATAGCTGAACTAA
1 TTAGAACACATTAAATAGCTGAACTAA
48055737 TTAGAACACATTAAATA----AACT--
1 TTAGAACACATTAAATAGCTGAACTAA
* *
48055758 TAAG-ACA-ATTTAAATTGCTGAACTAA
1 TTAGAACACA-TTAAATAGCTGAACTAA
48055784 TTAGAACACATTAAATA
1 TTAGAACACATTAAATA
48055801 AACTTAAGAC
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
19 1 0.02
20 9 0.18
21 3 0.06
23 4 0.08
24 4 0.08
26 3 0.06
27 24 0.49
28 1 0.02
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (27 bp):
TTAGAACACATTAAATAGCTGAACTAA
Found at i:48057195 original size:15 final size:15
Alignment explanation
Indices: 48057154--48057200 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
48057144 TTAAAATTTG
*
48057154 AAAAATATAGAAACTA
1 AAAAAT-TATAAACTA
* *
48057170 AAAAAAT-TAAATTA
1 AAAAATTATAAACTA
48057184 AAAAATTATAAACTA
1 AAAAATTATAAACTA
48057199 AA
1 AA
48057201 TCCACATCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 11 0.44
15 9 0.36
16 5 0.20
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.23
Consensus pattern (15 bp):
AAAAATTATAAACTA
Found at i:48058165 original size:10 final size:9
Alignment explanation
Indices: 48058124--48058212 Score: 63
Period size: 10 Copynumber: 9.6 Consensus size: 9
48058114 TTGCTTTTAT
48058124 TAAAAATTA
1 TAAAAATTA
*
48058133 TAAAAAATAA
1 T-AAAAATTA
**
48058143 TAAATTTTA
1 TAAAAATTA
48058152 TAAAAATTA
1 TAAAAATTA
**
48058161 TTAAATTTTAA
1 -TAAAAATT-A
48058172 TAAAAATTA
1 TAAAAATTA
*
48058181 -AAAAATTG
1 TAAAAATTA
*
48058189 TAAAATTTTA
1 TAAAA-ATTA
*
48058199 TAAAAATCA
1 TAAAAATTA
48058208 TAAAA
1 TAAAA
48058213 GAAATAACAA
Statistics
Matches: 60, Mismatches: 15, Indels: 10
0.71 0.18 0.12
Matches are distributed among these distances:
8 7 0.12
9 25 0.42
10 27 0.45
11 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (9 bp):
TAAAAATTA
Found at i:48058174 original size:20 final size:19
Alignment explanation
Indices: 48058130--48058187 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
48058120 TTATTAAAAA
*
48058130 TTATAAAAAATAATAAATT
1 TTATAAAAATTAATAAATT
*
48058149 TTATAAAAATTATTAAATT
1 TTATAAAAATTAATAAATT
*
48058168 TTAATAAAAATTAAAAAATT
1 TT-ATAAAAATTAATAAATT
48058188 GTAAAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTATAAAAATTAATAAATT
Found at i:48058184 original size:28 final size:27
Alignment explanation
Indices: 48058125--48058205 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 27
48058115 TGCTTTTATT
** * **
48058125 AAAAATTATAAAAAATAATAAATTTTA
1 AAAAATTATAAAATTTTATAAAAATTA
*
48058152 TAAAAATTATTAAATTTTAATAAAAATTA
1 -AAAAATTATAAAATTTT-ATAAAAATTA
*
48058181 AAAAATTGTAAAATTTTATAAAAAT
1 AAAAATTATAAAATTTTATAAAAAT
48058206 CATAAAAGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
27 8 0.18
28 28 0.64
29 8 0.18
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (27 bp):
AAAAATTATAAAATTTTATAAAAATTA
Found at i:48058212 original size:27 final size:28
Alignment explanation
Indices: 48058153--48058212 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
48058143 TAAATTTTAT
* *
48058153 AAAAATTATTAAATTTTAATAAAAATTA
1 AAAAATTATAAAATTTTAATAAAAATCA
*
48058181 AAAAATTGTAAAATTTT-ATAAAAATCA
1 AAAAATTATAAAATTTTAATAAAAATCA
*
48058208 TAAAA
1 AAAAA
48058213 GAAATAACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 13 0.46
28 15 0.54
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (28 bp):
AAAAATTATAAAATTTTAATAAAAATCA
Done.