Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 104 of 311
Found at i:34258162 original size:27 final size:26
Alignment explanation
Indices: 34258132--34258320 Score: 76
Period size: 27 Copynumber: 6.9 Consensus size: 26
34258122 GTAAATCTAC
34258132 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTC-GTAATTTTGT
* *
34258159 AAACCAATGGTATTTC-TATATTTTTT
1 AAACCAAGGGTATTTCGTA-ATTTTGT
* *
34258185 AGAAAGTCAAGGGTATTTCTGTAATTTGGT
1 --AAA-CCAAGGGTATTTC-GTAATTTTGT
** * * *
34258215 AAATTAGGGGTATTTTGGTAATTTTAT
1 AAACCAAGGGTA-TTTCGTAATTTTGT
*** * **
34258242 AAATTGAGCGTATTTCGATAATTTTAC
1 AAACCAAGGGTATTTCG-TAATTTTGT
* **
34258269 AAACC-AGTGGTATTTTGATAATTTTAC
1 AAACCAAG-GGTATTTCG-TAATTTTGT
* * *
34258296 AAACTAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTA-TTTCGTAATTTT
34258321 ACAAACTAGG
Statistics
Matches: 128, Mismatches: 23, Indels: 22
0.74 0.13 0.13
Matches are distributed among these distances:
25 2 0.02
26 12 0.09
27 82 0.64
28 14 0.11
29 11 0.09
30 5 0.04
31 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (26 bp):
AAACCAAGGGTATTTCGTAATTTTGT
Found at i:34258321 original size:27 final size:27
Alignment explanation
Indices: 34258219--34258345 Score: 166
Period size: 27 Copynumber: 4.7 Consensus size: 27
34258209 TTTGGTAAAT
*
34258219 TAGGGGTATTTTGGTAATTTTATAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * * *
34258245 TTGAGCGTATTTCGATAATTTTACAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* * *
34258273 CAGTGGTATTTTGATAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
34258300 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
34258327 TAGGGGTATTTTGGTAATT
1 TAGGGGTATTTTGGTAATT
34258346 CTATCCTACA
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.02
27 83 0.97
28 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:34258361 original size:54 final size:54
Alignment explanation
Indices: 34258117--34258378 Score: 159
Period size: 54 Copynumber: 4.8 Consensus size: 54
34258107 TACAAAGGTG
* * * * ** **
34258117 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGATAATTCTACAAACTAAGGGTATTTCGGTAATTTTACAAACCAGGGGTA
* * * * * *** **
34258171 TTTCT-ATATTTTTTAGAAAGTCAAGGGTATTTCTGTAATTTGGTAAATTAGGGGTA
1 TTT-TGATA-ATTCTACAAACT-AAGGGTATTTCGGTAATTTTACAAACCAGGGGTA
* * * * * * * *
34258227 TTTTGGTAATTTTATAAATTGAGCGTATTTCGATAATTTTACAAACCAGTGGTA
1 TTTTGATAATTCTACAAACTAAGGGTATTTCGGTAATTTTACAAACCAGGGGTA
* * * *
34258281 TTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGATAATTCTACAAACTAAGGGTATTTCGGTAATTTTACAAACCAGGGGTA
* ** * *
34258335 TTTTGGTAATTCTATCCTAC-AAGGGTATTTCAGTAATTTCACAA
1 TTTTGATAATTCTA-CAAACTAAGGGTATTTCGGTAATTTTACAA
34258379 TCGAGGGTAA
Statistics
Matches: 158, Mismatches: 45, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
54 105 0.66
55 20 0.13
56 33 0.21
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (54 bp):
TTTTGATAATTCTACAAACTAAGGGTATTTCGGTAATTTTACAAACCAGGGGTA
Found at i:34258362 original size:81 final size:80
Alignment explanation
Indices: 34258192--34258378 Score: 189
Period size: 81 Copynumber: 2.3 Consensus size: 80
34258182 TTTAGAAAGT
** * * *
34258192 CAAGGGTATTTCTGTAATTTGGTAAATTAGGGGTATTTTGGTAATTTTATAAATTGAGCGTATTT
1 CAAGGGTATTTCTGTAATTTGACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGCGTATTT
*
34258257 CGATAATTTTACAAA
66 CGATAATTCTACAAA
* * *
34258272 CCAGTGGTATTT-TGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTA
1 CAAG-GGTATTTCTG-TAATTTGACAAACTAGGGGTATTTTGGTAATTTTACAAA-TAGAGCGTA
* * **
34258335 TTTTGGTAATTCTATCCTA
63 TTTCGATAATTCTA-CAAA
* *
34258354 CAAGGGTATTTCAGTAATTTCACAA
1 CAAGGGTATTTCTGTAATTTGACAA
34258379 TCGAGGGTAA
Statistics
Matches: 86, Mismatches: 16, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
80 5 0.06
81 73 0.85
82 8 0.09
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (80 bp):
CAAGGGTATTTCTGTAATTTGACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGCGTATTT
CGATAATTCTACAAA
Found at i:34262052 original size:31 final size:31
Alignment explanation
Indices: 34262014--34262077 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
34262004 CCTTTTCATA
* *
34262014 TTTCATATTTCATAACATTGGGCCGAAGCCT
1 TTTCATATTTAATAACACTGGGCCGAAGCCT
**
34262045 TTTCATATTTAATATTACTGGGCCGAAGCCT
1 TTTCATATTTAATAACACTGGGCCGAAGCCT
34262076 TT
1 TT
34262078 ACTGTAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTAATAACACTGGGCCGAAGCCT
Found at i:34262373 original size:25 final size:24
Alignment explanation
Indices: 34262269--34262387 Score: 165
Period size: 23 Copynumber: 5.0 Consensus size: 24
34262259 GCTTTATCAT
*
34262269 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
34262294 ATAACT-GGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34262316 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
34262339 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
34262364 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34262388 CACTTCCTCC
Statistics
Matches: 87, Mismatches: 2, Indels: 11
0.87 0.02 0.11
Matches are distributed among these distances:
22 12 0.14
23 34 0.39
24 13 0.15
25 28 0.32
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:34262374 original size:48 final size:46
Alignment explanation
Indices: 34262260--34262387 Score: 161
Period size: 48 Copynumber: 2.7 Consensus size: 46
34262250 AGCATAGCTG
*
34262260 CTTTATCATATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGCAAAGCC
1 CTTTATC--ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGCAAAGCC
*
34262310 CTTT-TAATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCCCTTTTATAACT-GGGCA-AAGCC
34262357 CTTTATCATAACTGGGGCATAAGCCCTTTTA
1 CTTTATCATAACTGGGGCATAAGCCCTTTTA
34262388 CACTTCCTCC
Statistics
Matches: 71, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
45 6 0.08
46 14 0.20
47 21 0.30
48 25 0.35
49 1 0.01
50 4 0.06
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (46 bp):
CTTTATCATAACTGGGGCATAAGCCCTTTTATAACTGGGCAAAGCC
Found at i:34262454 original size:18 final size:18
Alignment explanation
Indices: 34262431--34262491 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 18
34262421 GCATTTATGA
34262431 ATACATCATGTGCATATC
1 ATACATCATGTGCATATC
34262449 ATACATATCATGTGC-TATC
1 ATAC--ATCATGTGCATATC
34262468 ATACATGTCA--TGCATATC
1 ATACA--TCATGTGCATATC
34262486 ATACAT
1 ATACAT
34262492 ACCATGTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
16 1 0.03
17 4 0.11
18 13 0.34
19 11 0.29
20 9 0.24
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (18 bp):
ATACATCATGTGCATATC
Found at i:34262503 original size:18 final size:18
Alignment explanation
Indices: 34262444--34262504 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
34262434 CATCATGTGC
34262444 ATATCATACATATCATGT
1 ATATCATACATATCATGT
* * *
34262462 GCTATCATACATGTCATGC
1 -ATATCATACATATCATGT
*
34262481 ATATCATACATACCATGT
1 ATATCATACATATCATGT
*
34262499 TTATCA
1 ATATCA
34262505 AAATCCCATG
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
18 19 0.56
19 15 0.44
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.36
Consensus pattern (18 bp):
ATATCATACATATCATGT
Found at i:34262576 original size:24 final size:24
Alignment explanation
Indices: 34262535--34262580 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
34262525 ATATATAACC
* * *
34262535 CTAGGGGTATAATGGTCATTTTTA
1 CTAGGGGCAAAATAGTCATTTTTA
34262559 CTAGGGGCAAAATAGTCATTTT
1 CTAGGGGCAAAATAGTCATTTT
34262581 CATATTATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (24 bp):
CTAGGGGCAAAATAGTCATTTTTA
Found at i:34270131 original size:31 final size:30
Alignment explanation
Indices: 34270093--34270156 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
34270083 CCTTTTCATA
34270093 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAG-CT
** *
34270124 TTTCATATTTCATATTATTGGGCCGAAGCT
1 TTTCATATTTCATAACACTGGGCCGAAGCT
34270154 TTT
1 TTT
34270157 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 5 0.17
31 25 0.83
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (30 bp):
TTTCATATTTCATAACACTGGGCCGAAGCT
Found at i:34270456 original size:25 final size:24
Alignment explanation
Indices: 34270369--34270470 Score: 161
Period size: 24 Copynumber: 4.2 Consensus size: 24
34270359 GGCCTGGCCT
*
34270369 CTTTTAATAACTGGGGTA-AAGCC
1 CTTTTAATAACTGGGGCATAAGCC
34270392 CTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
34270416 CTTTTAATAACTGGGGTATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
34270440 CTTTATCATAACTGGGGCATAAGCC
1 CTTT-TAATAACTGGGGCATAAGCC
34270465 CTTTTA
1 CTTTTA
34270471 CACTTCCTCC
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
23 17 0.24
24 33 0.46
25 22 0.31
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:34270464 original size:49 final size:47
Alignment explanation
Indices: 34270369--34270470 Score: 177
Period size: 49 Copynumber: 2.1 Consensus size: 47
34270359 GGCCTGGCCT
34270369 CTTTTAATAACTGGGGTAAAGCCCTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGTAAAGCCCTTTTAATAACTGGGGCATAAGCC
*
34270416 CTTTTAATAACTGGGGTATAAGCCCTTTATCATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGTA-AAGCCCTTT-TAATAACTGGGGCATAAGCC
34270465 CTTTTA
1 CTTTTA
34270471 CACTTCCTCC
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
47 18 0.35
48 9 0.17
49 25 0.48
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (47 bp):
CTTTTAATAACTGGGGTAAAGCCCTTTTAATAACTGGGGCATAAGCC
Found at i:34270544 original size:20 final size:20
Alignment explanation
Indices: 34270519--34270565 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
34270509 TTACGAATGC
34270519 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
34270539 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
34270559 ACCATGT
1 ATCATGT
34270566 TTATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:34270924 original size:11 final size:11
Alignment explanation
Indices: 34270910--34270952 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
34270900 TACCCAAATG
34270910 GGCCCCACTTC
1 GGCCCCACTTC
*
34270921 GGCCACACTTC
1 GGCCCCACTTC
34270932 GGCCCCACTTC
1 GGCCCCACTTC
*
34270943 GGCCCAACTT
1 GGCCCCACTT
34270953 ACCGAGAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.14, C:0.49, G:0.19, T:0.19
Consensus pattern (11 bp):
GGCCCCACTTC
Found at i:34277305 original size:29 final size:29
Alignment explanation
Indices: 34277272--34277345 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
34277262 GTTGTGAGAT
* *
34277272 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
34277301 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
34277330 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34277346 TGGTTGATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:34283019 original size:27 final size:27
Alignment explanation
Indices: 34282977--34283144 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
34282967 GGGACGAAAT
34282977 AATGACCGAAATACCCCTATAGGGTAA
1 AATGACCGAAATACCCCTATAGGGTAA
*
34283004 AATGACCGAAAGACCCCTATAGGGTAA
1 AATGACCGAAATACCCCTATAGGGTAA
* *
34283031 AATGACCAAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCTATAGGGTAA
** *
34283058 AATGATTGAAATA-CCTTCATAGGGTAA
1 AATGACCGAAATACCCCT-ATAGGGTAA
34283085 AATGACCGAAATAACCCC-ATAGGGTAA
1 AATGACCGAAAT-ACCCCTATAGGGTAA
* ** * **
34283112 AATGACTGTTATACCCCTGTAATGTAA
1 AATGACCGAAATACCCCTATAGGGTAA
34283139 AATGAC
1 AATGAC
34283145 TATTTTACCC
Statistics
Matches: 119, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 7 0.06
27 109 0.92
28 1 0.01
29 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (27 bp):
AATGACCGAAATACCCCTATAGGGTAA
Found at i:34283145 original size:27 final size:27
Alignment explanation
Indices: 34283107--34283418 Score: 268
Period size: 27 Copynumber: 11.6 Consensus size: 27
34283097 AACCCCATAG
34283107 GGTAAAATGACTGTTATACCC-C-TGTAA
1 GGTAAAATGACTGTTATACCCTCATG--A
* * *
34283134 TGTAAAATGACTATTTTACCCTCATGA
1 GGTAAAATGACTGTTATACCCTCATGA
* *
34283161 GGTAAAATGACTGTTTTGCCCTCATGA
1 GGTAAAATGACTGTTATACCCTCATGA
* *
34283188 GGTAAAATGACTGTTTTGCCCTCATGA
1 GGTAAAATGACTGTTATACCCTCATGA
* * *
34283215 GGTAAAATGACTATTTTGCCCTCATGA
1 GGTAAAATGACTGTTATACCCTCATGA
* * * *
34283242 GGCAAAATGACTATTTTTCCCTCATGA
1 GGTAAAATGACTGTTATACCCTCATGA
* * *
34283269 GGCAAAATGACTGTTTTGCCCTCATGA
1 GGTAAAATGACTGTTATACCCTCATGA
* *
34283296 GGTAAAATGACTGTTTTGCCCTCATGA
1 GGTAAAATGACTGTTATACCCTCATGA
* * * * *
34283323 GGTAAAATGACTGTTTTGCCTTTATGT
1 GGTAAAATGACTGTTATACCCTCATGA
* * * * * * *
34283350 GGTAAAATGATTATTTTGCACTTATGT
1 GGTAAAATGACTGTTATACCCTCATGA
* * * * *
34283377 GGTACAATGACTATTTTGCCTTCATGA
1 GGTAAAATGACTGTTATACCCTCATGA
34283404 GGTAAAATGACTGTT
1 GGTAAAATGACTGTT
34283419 GATGGTCGCT
Statistics
Matches: 256, Mismatches: 27, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
27 253 0.99
28 1 0.00
29 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAAAATGACTGTTATACCCTCATGA
Found at i:34283165 original size:54 final size:54
Alignment explanation
Indices: 34283135--34283415 Score: 409
Period size: 54 Copynumber: 5.2 Consensus size: 54
34283125 CCCCTGTAAT
*
34283135 GTAAAATGACTATTTTACCCTCATGAGGTAAAATGACTGTTTTGCCCTCATGAG
1 GTAAAATGACTATTTTGCCCTCATGAGGTAAAATGACTGTTTTGCCCTCATGAG
* *
34283189 GTAAAATGACTGTTTTGCCCTCATGAGGTAAAATGACTATTTTGCCCTCATGAG
1 GTAAAATGACTATTTTGCCCTCATGAGGTAAAATGACTGTTTTGCCCTCATGAG
* * *
34283243 GCAAAATGACTATTTTTCCCTCATGAGGCAAAATGACTGTTTTGCCCTCATGAG
1 GTAAAATGACTATTTTGCCCTCATGAGGTAAAATGACTGTTTTGCCCTCATGAG
* * * *
34283297 GTAAAATGACTGTTTTGCCCTCATGAGGTAAAATGACTGTTTTGCCTTTATGTG
1 GTAAAATGACTATTTTGCCCTCATGAGGTAAAATGACTGTTTTGCCCTCATGAG
* * * * * * *
34283351 GTAAAATGATTATTTTGCACTTATGTGGTACAATGACTATTTTGCCTTCATGAG
1 GTAAAATGACTATTTTGCCCTCATGAGGTAAAATGACTGTTTTGCCCTCATGAG
34283405 GTAAAATGACT
1 GTAAAATGACT
34283416 GTTGATGGTC
Statistics
Matches: 202, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 202 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (54 bp):
GTAAAATGACTATTTTGCCCTCATGAGGTAAAATGACTGTTTTGCCCTCATGAG
Found at i:34283415 original size:81 final size:81
Alignment explanation
Indices: 34283135--34283418 Score: 424
Period size: 81 Copynumber: 3.5 Consensus size: 81
34283125 CCCCTGTAAT
*
34283135 GTAAAATGACTATTTTACCCTCATGAGGTAAAATGACTGTTTTGCCCTCATGAGGTAAAATGACT
1 GTAAAATGACTATTTTGCCCTCATGAGGTAAAATGACTGTTTTGCCCTCATGAGGTAAAATGACT
34283200 GTTTTGCCCTCATGAG
66 GTTTTGCCCTCATGAG
* * * *
34283216 GTAAAATGACTATTTTGCCCTCATGAGGCAAAATGACTATTTTTCCCTCATGAGGCAAAATGACT
1 GTAAAATGACTATTTTGCCCTCATGAGGTAAAATGACTGTTTTGCCCTCATGAGGTAAAATGACT
34283281 GTTTTGCCCTCATGAG
66 GTTTTGCCCTCATGAG
* * * * *
34283297 GTAAAATGACTGTTTTGCCCTCATGAGGTAAAATGACTGTTTTGCCTTTATGTGGTAAAATGATT
1 GTAAAATGACTATTTTGCCCTCATGAGGTAAAATGACTGTTTTGCCCTCATGAGGTAAAATGACT
* * * *
34283362 ATTTTGCACTTATGTG
66 GTTTTGCCCTCATGAG
* *
34283378 GTACAATGACTATTTTGCCTTCATGAGGTAAAATGACTGTT
1 GTAAAATGACTATTTTGCCCTCATGAGGTAAAATGACTGTT
34283419 GATGGTCGCT
Statistics
Matches: 182, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 182 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (81 bp):
GTAAAATGACTATTTTGCCCTCATGAGGTAAAATGACTGTTTTGCCCTCATGAGGTAAAATGACT
GTTTTGCCCTCATGAG
Found at i:34284864 original size:5 final size:5
Alignment explanation
Indices: 34284854--34284878 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
34284844 GTATGATTCT
34284854 ATGAC ATGAC ATGAC ATGAC ATGAC
1 ATGAC ATGAC ATGAC ATGAC ATGAC
34284879 CGTATGATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
ATGAC
Found at i:34285122 original size:18 final size:18
Alignment explanation
Indices: 34285099--34285143 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
34285089 GACTTGTATT
34285099 CTGTTACTGCACTGATTA
1 CTGTTACTGCACTGATTA
* * *
34285117 CTGTTATTGCATTGTTTA
1 CTGTTACTGCACTGATTA
*
34285135 TTGTTACTG
1 CTGTTACTG
34285144 TATTGGGCCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.49
Consensus pattern (18 bp):
CTGTTACTGCACTGATTA
Found at i:34286729 original size:28 final size:28
Alignment explanation
Indices: 34286697--34286760 Score: 119
Period size: 28 Copynumber: 2.2 Consensus size: 28
34286687 TGATTTTAGA
34286697 AAATGAGGTATTGGGACCTCATTTCTAT
1 AAATGAGGTATTGGGACCTCATTTCTAT
34286725 AAATGAGGTATTGGGACCTCATTTCTAT
1 AAATGAGGTATTGGGACCTCATTTCTAT
34286753 AAACTGAG
1 AAA-TGAG
34286761 CCATAAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 31 0.89
29 4 0.11
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (28 bp):
AAATGAGGTATTGGGACCTCATTTCTAT
Found at i:34288197 original size:25 final size:25
Alignment explanation
Indices: 34288169--34288221 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
34288159 CGTGTAGCTA
*
34288169 CATTCTGACCCATAGCTCGTGTGAG
1 CATTCTGACCCACAGCTCGTGTGAG
** *
34288194 CATTCTGATTCACAGCTTGTGTGAG
1 CATTCTGACCCACAGCTCGTGTGAG
34288219 CAT
1 CAT
34288222 ACATGTACAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.32
Consensus pattern (25 bp):
CATTCTGACCCACAGCTCGTGTGAG
Found at i:34297084 original size:29 final size:29
Alignment explanation
Indices: 34297051--34297110 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
34297041 TAGGAATATG
34297051 AAATTCCATTA-GTATATCTTAGGTTAATT
1 AAATTCCATTAGGT-TATCTTAGGTTAATT
*
34297080 AAATTCCATTAGGTTATTTTAGGTTAATT
1 AAATTCCATTAGGTTATCTTAGGTTAATT
34297109 AA
1 AA
34297111 TTTAATTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 27 0.93
30 2 0.07
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (29 bp):
AAATTCCATTAGGTTATCTTAGGTTAATT
Found at i:34301824 original size:22 final size:22
Alignment explanation
Indices: 34301799--34301842 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
34301789 TAGTCATATA
34301799 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
34301821 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
34301843 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:34301954 original size:15 final size:15
Alignment explanation
Indices: 34301934--34301990 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
34301924 ATTCAATATT
34301934 AATATTTTAATAATA
1 AATATTTTAATAATA
*
34301949 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
34301968 AATATATTAATAATA
1 AATATTTTAATAATA
*
34301983 AATGTTTT
1 AATATTTT
34301991 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:34302463 original size:14 final size:13
Alignment explanation
Indices: 34302444--34302482 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 13
34302434 CAAGAAAAGT
34302444 AAATCATTTTCCA
1 AAATCATTTTCCA
34302457 GAAATCATTTTCCA
1 -AAATCATTTTCCA
34302471 AAAGTCATTTTC
1 AAA-TCATTTTC
34302483 TGTGAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 3 0.12
14 21 0.88
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (13 bp):
AAATCATTTTCCA
Found at i:34303686 original size:22 final size:22
Alignment explanation
Indices: 34303644--34303686 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
34303634 CACTAAGTCA
* * *
34303644 ACAGAACGGCTCAATGTCGTAG
1 ACAGAACGGCTAAAGGCCGTAG
34303666 ACAGAACGGCTAAAGGCCGTA
1 ACAGAACGGCTAAAGGCCGTA
34303687 AATATTGTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.23, G:0.28, T:0.14
Consensus pattern (22 bp):
ACAGAACGGCTAAAGGCCGTAG
Found at i:34304242 original size:18 final size:18
Alignment explanation
Indices: 34304201--34304243 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
34304191 GATTTGTGTG
34304201 AGGCCC-ATGAGCCCATT
1 AGGCCCAATGAGCCCATT
*
34304218 CGGCCCAATG-GCCCATCT
1 AGGCCCAATGAGCCCAT-T
34304236 AGGCCCAA
1 AGGCCCAA
34304244 CGTGGCCCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.23, C:0.40, G:0.23, T:0.14
Consensus pattern (18 bp):
AGGCCCAATGAGCCCATT
Found at i:34311172 original size:20 final size:20
Alignment explanation
Indices: 34311149--34311189 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
34311139 CCACATAGTA
34311149 CATTTTAAATTCACACATGG
1 CATTTTAAATTCACACATGG
34311169 CATTTTAAATTCACACATGG
1 CATTTTAAATTCACACATGG
34311189 C
1 C
34311190 TTCCAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (20 bp):
CATTTTAAATTCACACATGG
Found at i:34311197 original size:18 final size:19
Alignment explanation
Indices: 34311155--34311199 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
34311145 AGTACATTTT
*
34311155 AAATTCACACATGGCATTTT
1 AAATTCACACATGGCA-TTC
34311175 AAATTCACACATGGC-TTC
1 AAATTCACACATGGCATTC
*
34311193 CAATTCA
1 AAATTCA
34311200 TATCTATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
20 15 0.65
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.31
Consensus pattern (19 bp):
AAATTCACACATGGCATTC
Found at i:34315817 original size:27 final size:27
Alignment explanation
Indices: 34315531--34315816 Score: 358
Period size: 27 Copynumber: 10.6 Consensus size: 27
34315521 AAAGTACTCC
34315531 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
34315558 CGATTTATAGAATTACGGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
34315585 CGATTTATAGAATTACCGTTTTACTCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
34315612 CGATTTTTAAAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* *
34315639 CGATTTACATAATTACCATTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* *
34315665 CTGATTTACATAATTATCGTTTTACCCT
1 C-GATTTACAGAATTACCGTTTTACCCT
*
34315693 CGACTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
34315720 CGATTTACAGAATTACAGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * **
34315747 TGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
34315774 TAATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
34315801 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
34315817 TAAAATACCC
Statistics
Matches: 228, Mismatches: 29, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.00
27 226 0.99
28 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:34315825 original size:27 final size:26
Alignment explanation
Indices: 34315795--34315880 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 26
34315785 ATTACTGTTT
**
34315795 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCT-GATTTGTAAAATTACTAAAA
* *
34315822 TACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTGA-TTTGTAAAATTACTAAAA
34315849 TACCCT-AGTTTGTAAAATTA-TCAAAA
1 TACCCTGA-TTTGTAAAATTACT-AAAA
34315875 TACCCT
1 TACCCT
34315881 TGAAATTACC
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 25 0.48
27 27 0.52
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.33
Consensus pattern (26 bp):
TACCCTGATTTGTAAAATTACTAAAA
Found at i:34315842 original size:54 final size:54
Alignment explanation
Indices: 34315620--34315843 Score: 153
Period size: 54 Copynumber: 4.1 Consensus size: 54
34315610 CTCGATTTTT
* * * * *** * *
34315620 AAAATTACCGTTTTACCCCCGATTTACATAATTACCATTTTACCCCTGATTTAC
1 AAAATTACAGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAATTTAC
* * * ***** **
34315674 ATAATTATC-GTTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTA-CAGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAATTTAC
* * * * ***
34315728 AGAATTACAGTTTTACCCTTGATTTATAGAATTACTATTTTACCCTTAATTTAC
1 AAAATTACAGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAATTTAC
* * * **
34315782 AGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGT
1 AAAATTACAGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAATTTAC
34315836 AAAATTAC
1 AAAATTAC
34315844 CAAAATACCC
Statistics
Matches: 142, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
53 1 0.01
54 140 0.99
55 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (54 bp):
AAAATTACAGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAATTTAC
Found at i:34315853 original size:81 final size:81
Alignment explanation
Indices: 34315533--34315854 Score: 191
Period size: 81 Copynumber: 4.0 Consensus size: 81
34315523 AGTACTCCCG
* * * *** * *
34315533 ATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACGGTTTTACCCTCGATTTATAGAAT
1 ATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACAGAAATACCCTTGATTTATAAAAT
**** * **
34315598 TACCGTTTTACTCTCG
66 TACCAAAATACCCTTA
** * * * *** * * *
34315614 ATTTTTAAAATTACCGTTTTACCCCCGATTTACATAATTACCA-TTTTACCCCTGATTTACATAA
1 ATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTA-CAGAAATACCCTTGATTTATAAAA
* **** **
34315678 TTATCGTTTTACCCTCG
65 TTACCAAAATACCCTTA
* * *** *
34315695 ACTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACAGTTTTACCCTTGATTTATAGAAT
1 ATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACAGAAATACCCTTGATTTATAAAAT
* ***
34315760 TACTATTTTACCCTTA
66 TACCAAAATACCCTTA
* *
34315776 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTA-AAATACCCTT-AGTTTGTAAA
1 ATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTAC-AGAAATACCCTTGA-TTTATAAA
34315839 ATTACCAAAATACCCT
64 ATTACCAAAATACCCT
34315855 AGTTTGTAAA
Statistics
Matches: 198, Mismatches: 39, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
80 3 0.02
81 193 0.97
82 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (81 bp):
ATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACAGAAATACCCTTGATTTATAAAAT
TACCAAAATACCCTTA
Found at i:34315864 original size:26 final size:26
Alignment explanation
Indices: 34315809--34315921 Score: 123
Period size: 26 Copynumber: 4.5 Consensus size: 26
34315799 CTCGATTTAC
*
34315809 AAAATTACTAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCC-TAGTTTGT
34315836 AAAATTACCAAAATACCCTAGTTTGT
1 AAAATTACCAAAATACCCTAGTTTGT
*
34315862 AAAATTATCAAAATACCC----TTG-
1 AAAATTACCAAAATACCCTAGTTTGT
* *
34315883 -AAATTACCGAAA-ACCCTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
34315908 AAAATTACCAAAAT
1 AAAATTACCAAAAT
34315922 TGATTTACAA
Statistics
Matches: 73, Mismatches: 5, Indels: 16
0.78 0.05 0.17
Matches are distributed among these distances:
19 4 0.05
20 10 0.14
22 3 0.04
24 3 0.04
26 36 0.49
27 17 0.23
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAGTTTGT
Found at i:34316010 original size:27 final size:27
Alignment explanation
Indices: 34315925--34316010 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
34315915 CCAAAATTGA
* * *
34315925 TTTACAAAGTTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCCTT-AG
* *
34315953 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACCCTTAG
34315981 TTTACAAAATTACTGAAATACCCTTAG
1 TTTACAAAATTACTGAAATACCCTTAG
34316008 TTT
1 TTT
34316011 GTAGATTTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
27 22 0.48
28 7 0.15
29 17 0.37
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTAG
Found at i:34316128 original size:27 final size:27
Alignment explanation
Indices: 34316064--34316128 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
34316054 ACTCCTATTA
*
34316064 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
34316091 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
34316118 GGTAAAATGAC
1 GGTAAAATGAC
34316129 GAATATGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:34317317 original size:25 final size:25
Alignment explanation
Indices: 34317288--34317335 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34317278 TTATAATATG
* * *
34317288 AAAATGACCGTTCTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
34317313 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
34317336 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:34317386 original size:9 final size:9
Alignment explanation
Indices: 34317374--34317430 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
34317364 TTTGATAAAC
34317374 ATGATATGT
1 ATGATATGT
*
34317383 ATGATATGCAC
1 ATGATATG--T
*
34317394 ATGACATGT
1 ATGATATGT
*
34317403 ATGATATGCAC
1 ATGATATG--T
34317414 ATGATATGT
1 ATGATATGT
34317423 ATGATATG
1 ATGATATG
34317431 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:34317397 original size:20 final size:20
Alignment explanation
Indices: 34317372--34317442 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
34317362 ATTTTGATAA
34317372 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
34317392 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
34317412 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
34317432 ACATGAGATGT
1 ACATGATATGT
34317443 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:34317419 original size:11 final size:11
Alignment explanation
Indices: 34317383--34317437 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
34317373 CATGATATGT
34317383 ATGATATGCAC
1 ATGATATGCAC
* *
34317394 ATGACATG--T
1 ATGATATGCAC
34317403 ATGATATGCAC
1 ATGATATGCAC
*
34317414 ATGATATG--T
1 ATGATATGCAC
34317423 ATGATATGCAC
1 ATGATATGCAC
34317434 ATGA
1 ATGA
34317438 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34317617 original size:24 final size:24
Alignment explanation
Indices: 34317489--34317657 Score: 220
Period size: 25 Copynumber: 7.0 Consensus size: 24
34317479 AGGAAGTGCA
*
34317489 AAAGGGCTTATGCCCTAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
34317512 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
34317535 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
34317560 GAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
34317585 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
34317609 AAAGGGCTTTTGCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
34317633 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
34317658 GATAAAGCAG
Statistics
Matches: 133, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
23 44 0.33
24 31 0.23
25 58 0.44
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:34317652 original size:49 final size:47
Alignment explanation
Indices: 34317488--34317656 Score: 207
Period size: 49 Copynumber: 3.5 Consensus size: 47
34317478 GAGGAAGTGC
* *
34317488 AAAAGGGCTTATGCCCTAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* **
34317534 TAAAGGGCTTATGCCCCAGTTATGATGAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAAGGGCTTATGCCCCAGTTAT
*
34317582 GATAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTACT
1 -A-AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
34317632 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
34317657 TGATAAAGCA
Statistics
Matches: 108, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
46 21 0.19
48 31 0.29
49 33 0.31
50 23 0.21
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:34317884 original size:31 final size:31
Alignment explanation
Indices: 34317849--34317912 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
34317839 CGTTTACAGT
*
34317849 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
34317880 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34317911 AA
1 AA
34317913 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:34326169 original size:46 final size:46
Alignment explanation
Indices: 34326098--34326187 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
34326088 GCTTAGAGAC
* *
34326098 TGTCTGAATAGGGCTAAATTCGATTCAGAATAAGTTGTTAGATCGG
1 TGTCTGAATAGAGCTAAATTCGATTCAGAACAAGTTGTTAGATCGG
* * *
34326144 TGTCTGAATAGAGCTGAATTTGATTCAGAACAAGTTTTTAGATC
1 TGTCTGAATAGAGCTAAATTCGATTCAGAACAAGTTGTTAGATC
34326188 AGTAACTGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (46 bp):
TGTCTGAATAGAGCTAAATTCGATTCAGAACAAGTTGTTAGATCGG
Found at i:34332959 original size:27 final size:27
Alignment explanation
Indices: 34332928--34332994 Score: 134
Period size: 27 Copynumber: 2.5 Consensus size: 27
34332918 ACCCAACCTC
34332928 TCCTAAAACCCCTCTAAAACCTTTAAA
1 TCCTAAAACCCCTCTAAAACCTTTAAA
34332955 TCCTAAAACCCCTCTAAAACCTTTAAA
1 TCCTAAAACCCCTCTAAAACCTTTAAA
34332982 TCCTAAAACCCCT
1 TCCTAAAACCCCT
34332995 TTTCTCTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (27 bp):
TCCTAAAACCCCTCTAAAACCTTTAAA
Found at i:34347063 original size:40 final size:39
Alignment explanation
Indices: 34346939--34347160 Score: 232
Period size: 40 Copynumber: 5.6 Consensus size: 39
34346929 TCCTCGTTCA
* * * * *
34346939 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
34346978 AATGCCTTCGGGACATAACCCGGATTTAA-AACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
34347016 GACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
34347056 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
34347096 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
34347137 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34347161 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
38 8 0.05
39 56 0.35
40 86 0.54
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:34372718 original size:71 final size:71
Alignment explanation
Indices: 34372597--34372747 Score: 241
Period size: 71 Copynumber: 2.1 Consensus size: 71
34372587 CGGGAATCAT
* *
34372597 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
34372662 ATATCG
66 ATATCG
***
34372668 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAA-CCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATG
34372732 GATATCG
65 GATATCG
34372739 CACTTAGCA
1 CACTTAGCA
34372748 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 7 0.09
71 67 0.91
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:34372775 original size:102 final size:96
Alignment explanation
Indices: 34372667--34372879 Score: 302
Period size: 102 Copynumber: 2.2 Consensus size: 96
34372657 AATGGATATC
***
34372667 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTT-ACATTTCAAAGATACAATG
34372732 GATATCGCACTTAGC-ACCACCAATGAACGGGGAATCA
65 GATATCGCACTTAGCAACC-CC--T---CGGGGAATCA
* *
34372769 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTTCATTTCAAATATACAATGG
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTACATTTCAAAGATACAATGG
34372834 ATATCGCACTTAGCAACCCCTCGGGGAATCA
66 ATATCGCACTTAGCAACCCCTCGGGGAATCA
*
34372865 GCACATAGCAACCCC
1 GCACTTAGCAACCCC
34372880 CTTCACATTT
Statistics
Matches: 104, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
96 24 0.23
99 1 0.01
101 31 0.30
102 48 0.46
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.20
Consensus pattern (96 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTACATTTCAAAGATACAATGG
ATATCGCACTTAGCAACCCCTCGGGGAATCA
Found at i:34372791 original size:27 final size:27
Alignment explanation
Indices: 34372760--34372811 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
34372750 ACCAATGAAC
*
34372760 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
34372787 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
34372812 TTTCATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.13
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:34372849 original size:70 final size:70
Alignment explanation
Indices: 34372769--34372918 Score: 230
Period size: 70 Copynumber: 2.1 Consensus size: 70
34372759 CGGGGAATCA
** *
34372769 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAA-CCCCTTTTCATTTCAAATATACAATG
1 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTCACATTTCAAAGATACAATG
34372833 GATATC
65 GATATC
***
34372839 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTCACATTTCAAAGATATGGTGG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTCACATTTCAAAGATACAATGG
34372904 ATATC
66 ATATC
34372909 GCACTTAGCA
1 GCACTTAGCA
34372919 CCACCAATGA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
69 20 0.27
70 53 0.73
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (70 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTCACATTTCAAAGATACAATGG
ATATC
Found at i:34372923 original size:171 final size:172
Alignment explanation
Indices: 34372554--34372995 Score: 782
Period size: 171 Copynumber: 2.6 Consensus size: 172
34372544 TAACCGTTAT
* * *
34372554 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGAATCATCACTTAGCAACCCCTCGGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGAATCAGCACTTAGCAACCCCTCGGGGGA
34372619 ATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGGATATCGCACTTAGCAACCCCTC
65 ATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGGATATCGCACTTAGCAACCCCTC
*
34372684 GGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATA
130 GGGGGAATCAGCACATAGCAACCCCCTTCACATTTCAAAGATA
34372727 TGGTGGATATCGCACTTAGCACCACCAATGAACGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAAC-GGGAATCAGCACTTAGCAACCCCTCGGGGGA
34372792 ATCAGCACATAGCAA-CCCCTTTTCATTTCAAATATACAATGGATATCGCACTTAGCAACCCCTC
65 ATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGGATATCGCACTTAGCAACCCCTC
34372856 -GGGGAATCAGCACATAGCAACCCCCTTCACATTTCAAAGATA
130 GGGGGAATCAGCACATAGCAACCCCCTTCACATTTCAAAGATA
34372898 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGAATCAGCACTTAGCAACCCCTC-GGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGAATCAGCACTTAGCAACCCCTCGGGGGA
*
34372962 ATCAGCACATAGCAACCCCCTTTCACATTTCAAA
65 ATCAGCACATAGCAACCCCCTTT-TCATTTCAAA
34372996 GATATGGTGG
Statistics
Matches: 260, Mismatches: 5, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
170 20 0.08
171 105 0.40
172 60 0.23
173 75 0.29
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (172 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAACGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
TCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGGATATCGCACTTAGCAACCCCTCG
GGGGAATCAGCACATAGCAACCCCCTTCACATTTCAAAGATA
Found at i:34372945 original size:101 final size:103
Alignment explanation
Indices: 34372839--34373058 Score: 356
Period size: 102 Copynumber: 2.2 Consensus size: 103
34372829 AATGGATATC
34372839 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCC-TTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
34372903 GAT-ATCGCACTTAGCACCACCAATGAA-CCGGGAATCA
66 GATCA-CGCACATAGCACCACCAATAAATCCGGGAATCA
34372940 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
34373005 GATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GATCACGCACATAGCACCACCAATAAATCCGGGAATCA
**
34373043 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
34373059 TTTATATACA
Statistics
Matches: 110, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
101 42 0.38
102 44 0.40
103 24 0.22
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATCACGCACATAGCACCACCAATAAATCCGGGAATCA
Found at i:34373416 original size:29 final size:29
Alignment explanation
Indices: 34373383--34373446 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
34373373 TAATCCACCA
34373383 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
34373412 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
34373442 CCCAA
1 CCCAA
34373447 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:34373420 original size:30 final size:30
Alignment explanation
Indices: 34373390--34373446 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
34373380 CCACCCAACT
34373390 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
34373419 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
34373447 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:34379362 original size:221 final size:221
Alignment explanation
Indices: 34378979--34379424 Score: 865
Period size: 221 Copynumber: 2.0 Consensus size: 221
34378969 TGAATTCTGT
34378979 ACAATGAGAAATTTGATCCATAGTGAAGAGTGGTCAGATTAGTCAAATAGTGAAACAAGGGAAAC
1 ACAATGAGAAATTTGATCCATAGTGAAGAGTGGTCAGATTAGTCAAATAGTGAAACAAGGGAAAC
34379044 TTTAAGAAAAATCTGGTATTGATTGGTCAAACCAAAAATTCTGAAAATTTTATGGATAAAAGATA
66 TTTAAGAAAAATCTGGTATTGATTGGTCAAACCAAAAATTCTGAAAATTTTATGGATAAAAGATA
*
34379109 TATTAGTATATTTTCAGATAAAATTAACGGCACTTTATTTGGAGTTTCGTAGCTCCAGTTATAAA
131 TATTAGTATATTTTCAGATAAAATTAACGGCACTTTATTTGGAGTTCCGTAGCTCCAGTTATAAA
34379174 TGATTTAGTGACTATTGCTCAGGAAG
196 TGATTTAGTGACTATTGCTCAGGAAG
*
34379200 ACAATGAGAAATTTGATTCATAGTGAAGAGTGGTCAGATTAGTCAAATAGTGAAACAAGGGAAAC
1 ACAATGAGAAATTTGATCCATAGTGAAGAGTGGTCAGATTAGTCAAATAGTGAAACAAGGGAAAC
34379265 TTTAAGAAAAATCTGGTATTGATTGGTCAAACCAAAAATTCTGAAAATTTTATGGATAAAAGATA
66 TTTAAGAAAAATCTGGTATTGATTGGTCAAACCAAAAATTCTGAAAATTTTATGGATAAAAGATA
34379330 TATTAGTATATTTTCAGATAAAATTAACGGCACTTTATTTGGAGTTCCGTAGCTCCAGTTATAAA
131 TATTAGTATATTTTCAGATAAAATTAACGGCACTTTATTTGGAGTTCCGTAGCTCCAGTTATAAA
*
34379395 TGATTTAGTGACTGTTGCTCAGGAAG
196 TGATTTAGTGACTATTGCTCAGGAAG
34379421 ACAA
1 ACAA
34379425 CTTGCAGTGG
Statistics
Matches: 222, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
221 222 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.31
Consensus pattern (221 bp):
ACAATGAGAAATTTGATCCATAGTGAAGAGTGGTCAGATTAGTCAAATAGTGAAACAAGGGAAAC
TTTAAGAAAAATCTGGTATTGATTGGTCAAACCAAAAATTCTGAAAATTTTATGGATAAAAGATA
TATTAGTATATTTTCAGATAAAATTAACGGCACTTTATTTGGAGTTCCGTAGCTCCAGTTATAAA
TGATTTAGTGACTATTGCTCAGGAAG
Found at i:34380414 original size:38 final size:38
Alignment explanation
Indices: 34380306--34380425 Score: 152
Period size: 38 Copynumber: 3.1 Consensus size: 38
34380296 ATTTGATGTG
* * * *
34380306 TATCCGGGCTTAAAGACCCGCAGG-CTATATGCTAGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCCTA-GTGCTGGTATTA
* *
34380346 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
34380384 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
34380422 TATC
1 TATC
34380426 TAAGTTTAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
38 57 0.80
39 6 0.08
40 8 0.11
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
Found at i:34380454 original size:40 final size:38
Alignment explanation
Indices: 34380342--34380462 Score: 143
Period size: 38 Copynumber: 3.1 Consensus size: 38
34380332 ATATGCTAGA
**
34380342 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATCAAGGTTAAATCCCGCAGGCTTCGTGCTGGT
** * *
34380380 ATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
1 ATTATATCAAGGTTAAATCCCGCAGGCTTCGTGCTGGT
* *
34380418 ATTATATCTAAGTTTAAAGTCCCGTAGGCTTCGTGCTGGT
1 ATTATATC-AAGGTTAAA-TCCCGCAGGCTTCGTGCTGGT
*
34380458 GTTAT
1 ATTAT
34380463 GTTCGGGTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 44 0.61
39 6 0.08
40 22 0.31
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (38 bp):
ATTATATCAAGGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:34381547 original size:15 final size:16
Alignment explanation
Indices: 34381527--34381560 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
34381517 ATTAATGAGC
34381527 ATTCTTTT-TTCCATT
1 ATTCTTTTATTCCATT
*
34381542 ATTCTTTTATTTCATT
1 ATTCTTTTATTCCATT
34381558 ATT
1 ATT
34381561 TATCTTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTCTTTTATTCCATT
Found at i:34385220 original size:30 final size:30
Alignment explanation
Indices: 34385165--34385221 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
34385155 AAGGCCATGG
* * *
34385165 CACACGGGCGTGTGGTTTACTCGTGTGTCA
1 CACACGGGCGTGTGGATCACCCGTGTGTCA
*
34385195 CACATGGGCGTGTGGATCACCCGTGTG
1 CACACGGGCGTGTGGATCACCCGTGTG
34385222 GAAGTGCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.14, C:0.25, G:0.35, T:0.26
Consensus pattern (30 bp):
CACACGGGCGTGTGGATCACCCGTGTGTCA
Found at i:34388662 original size:25 final size:26
Alignment explanation
Indices: 34388606--34388663 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
34388596 ATAATATATC
* *
34388606 AATAATAAAACAATCAGAAATAACGT
1 AATAATAAAACAATAAGAAAGAACGT
* *
34388632 AA-AATAAAACAGTAATAAAGAAC-T
1 AATAATAAAACAATAAGAAAGAACGT
34388656 AATAATAA
1 AATAATAA
34388664 TAATAATACT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 3 0.11
25 22 0.81
26 2 0.07
ACGTcount: A:0.66, C:0.09, G:0.07, T:0.19
Consensus pattern (26 bp):
AATAATAAAACAATAAGAAAGAACGT
Found at i:34388676 original size:18 final size:18
Alignment explanation
Indices: 34388653--34388689 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
34388643 GTAATAAAGA
* *
34388653 ACTAATAATAATAATAAT
1 ACTAATAAAAATAAAAAT
34388671 ACTAATAAAAATAAAAAT
1 ACTAATAAAAATAAAAAT
34388689 A
1 A
34388690 ATTTAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
ACTAATAAAAATAAAAAT
Found at i:34388944 original size:19 final size:19
Alignment explanation
Indices: 34388920--34388974 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
34388910 GGGAGAAAGT
34388920 GAAAGAAAGAGGAAAGAAA
1 GAAAGAAAGAGGAAAGAAA
*
34388939 GAAAGAAA-AGAGAAGGAAA
1 GAAAGAAAGAG-GAAAGAAA
34388958 GAAAGAGAAG-GGAAAGA
1 GAAAGA-AAGAGGAAAGA
34388975 GCAAGAGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 2 0.06
19 26 0.84
20 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (19 bp):
GAAAGAAAGAGGAAAGAAA
Found at i:34388952 original size:15 final size:16
Alignment explanation
Indices: 34388912--34388989 Score: 65
Period size: 14 Copynumber: 5.1 Consensus size: 16
34388902 GAGGAGAGGG
*
34388912 GAGAAAGTGAAAGAAA
1 GAGAAAGAGAAAGAAA
*
34388928 GAGGAA-AGAAAGAAA
1 GAGAAAGAGAAAGAAA
*
34388943 GA-AAAGAG-AAGGAA
1 GAGAAAGAGAAAGAAA
*
34388957 -AGAAAGAGAAGGGAAA
1 GAGAAAGAGAA-AGAAA
* *
34388973 GAGCAAGAGAATGAAA
1 GAGAAAGAGAAAGAAA
34388989 G
1 G
34388990 CAAGGAGAGG
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
13 1 0.02
14 13 0.27
15 13 0.27
16 13 0.27
17 9 0.18
ACGTcount: A:0.62, C:0.01, G:0.35, T:0.03
Consensus pattern (16 bp):
GAGAAAGAGAAAGAAA
Found at i:34388982 original size:17 final size:14
Alignment explanation
Indices: 34388931--34388989 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 14
34388921 AAAGAAAGAG
34388931 GAAAGA-AA-GAAA
1 GAAAGAGAAGGAAA
34388943 GAAAAGAGAAGGAAA
1 G-AAAGAGAAGGAAA
34388958 GAAAGAGAAGGGAAA
1 GAAAGAGAA-GGAAA
*
34388973 GAGCAAGAGAATGAAA
1 GA--AAGAGAAGGAAA
34388989 G
1 G
34388990 CAAGGAGAGG
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
12 1 0.03
13 5 0.12
14 10 0.25
15 12 0.30
16 5 0.12
17 7 0.17
ACGTcount: A:0.63, C:0.02, G:0.34, T:0.02
Consensus pattern (14 bp):
GAAAGAGAAGGAAA
Found at i:34397596 original size:38 final size:39
Alignment explanation
Indices: 34397484--34397586 Score: 163
Period size: 39 Copynumber: 2.7 Consensus size: 39
34397474 CAGTGATGTT
*
34397484 TATCCGGACTTAGTGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGAGTCCGCAGGCTATGTGCTGGAATTA
* *
34397523 TATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGAGTCCGCAGGCTATGTGCTGGAATTA
*
34397562 TAACCGGACTTA-AGTCCGCAGGCTA
1 TATCCGGACTTAGAGTCCGCAGGCTA
34397587 CATGATGGAA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
38 12 0.20
39 47 0.80
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAGAGTCCGCAGGCTATGTGCTGGAATTA
Found at i:34397615 original size:38 final size:38
Alignment explanation
Indices: 34397537--34397624 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 38
34397527 CAGACTTAGG
** * * *
34397537 GTCCGCAGGCTATGTGCTGGAATTATAACCGGACTTAA
1 GTCCGCAGGCTACATGATGGAAATATAACCGGACTAAA
** *
34397575 GTCCGCAGGCTACATGATGGAAATATGTCCGGGCTAAA
1 GTCCGCAGGCTACATGATGGAAATATAACCGGACTAAA
34397613 GTCCCGCAGGCT
1 GT-CCGCAGGCT
34397625 TCGAGCTGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
38 32 0.78
39 9 0.22
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (38 bp):
GTCCGCAGGCTACATGATGGAAATATAACCGGACTAAA
Found at i:34401136 original size:17 final size:17
Alignment explanation
Indices: 34401114--34401148 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
34401104 AAAGAAGAGG
34401114 AGAAGAAGAAAATAAGA
1 AGAAGAAGAAAATAAGA
*
34401131 AGAAGAAGAAGATAAGA
1 AGAAGAAGAAAATAAGA
34401148 A
1 A
34401149 ATGGACATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.06
Consensus pattern (17 bp):
AGAAGAAGAAAATAAGA
Found at i:34404126 original size:25 final size:25
Alignment explanation
Indices: 34404097--34404144 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34404087 TTATAATATG
* * *
34404097 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
34404122 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
34404145 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:34404195 original size:9 final size:9
Alignment explanation
Indices: 34404183--34404259 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
34404173 TTTGATAAAC
34404183 ATGATATGT
1 ATGATATGT
*
34404192 ATGATATGCAC
1 ATGATATG--T
34404203 ATGATATGT
1 ATGATATGT
*
34404212 ATGATATGCAC
1 ATGATATG--T
*
34404223 ATGACATGT
1 ATGATATGT
*
34404232 ATGATATGCAC
1 ATGATATG--T
34404243 ATGATATGT
1 ATGATATGT
34404252 ATGATATG
1 ATGATATG
34404260 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:34404208 original size:11 final size:11
Alignment explanation
Indices: 34404192--34404263 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
34404182 CATGATATGT
34404192 ATGATATGCAC
1 ATGATATGCAC
*
34404203 ATGATATG--T
1 ATGATATGCAC
34404212 ATGATATGCAC
1 ATGATATGCAC
* *
34404223 ATGACATG--T
1 ATGATATGCAC
34404232 ATGATATGCAC
1 ATGATATGCAC
*
34404243 ATGATATG--T
1 ATGATATGCAC
34404252 ATGATATGCAC
1 ATGATATGCAC
34404263 A
1 A
34404264 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34404271 original size:20 final size:20
Alignment explanation
Indices: 34404181--34404263 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
34404171 ATTTTGATAA
34404181 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
34404201 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
34404221 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
34404241 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
34404261 ACA
1 ACA
34404264 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:34404371 original size:23 final size:24
Alignment explanation
Indices: 34404316--34404434 Score: 181
Period size: 24 Copynumber: 5.0 Consensus size: 24
34404306 GAGGAAGTGC
34404316 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
34404340 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
34404364 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
34404387 AAAAAGGGCTT-TGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
34404411 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34404435 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
23 29 0.33
24 43 0.48
25 17 0.19
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:34404386 original size:47 final size:47
Alignment explanation
Indices: 34404317--34404413 Score: 178
Period size: 47 Copynumber: 2.1 Consensus size: 47
34404307 AGGAAGTGCA
34404317 AAAGGGCTTATGCCCCAGTTATT-AAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTT-TGCCCCAGTTATT
34404364 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCAGTTATT
34404411 AAA
1 AAA
34404414 AGAGGCTAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 39 0.80
48 10 0.20
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCAGTTATT
Found at i:34404660 original size:31 final size:31
Alignment explanation
Indices: 34404625--34404688 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
34404615 CGTTTACAGT
34404625 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
34404656 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34404687 AA
1 AA
34404689 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:34412238 original size:25 final size:25
Alignment explanation
Indices: 34412192--34412239 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34412182 TTATAATATG
* * *
34412192 AAAATGACCATTTTGCCTCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
34412217 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
34412240 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:34412290 original size:9 final size:9
Alignment explanation
Indices: 34412277--34412356 Score: 70
Period size: 9 Copynumber: 8.2 Consensus size: 9
34412267 TTTTGATAAA
34412277 CATGATATG
1 CATGATATG
*
34412286 TATGATATG
1 CATGATATG
34412295 CACATGATATG
1 --CATGATATG
34412306 CATGATATG
1 CATGATATG
*
34412315 CACATGACATG
1 --CATGATATG
*
34412326 TATGATATG
1 CATGATATG
34412335 CACATGATATG
1 --CATGATATG
*
34412346 TATGATATG
1 CATGATATG
34412355 CA
1 CA
34412357 CACGAGATGT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
9 33 0.58
11 24 0.42
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (9 bp):
CATGATATG
Found at i:34412303 original size:11 final size:11
Alignment explanation
Indices: 34412287--34412358 Score: 75
Period size: 11 Copynumber: 7.1 Consensus size: 11
34412277 CATGATATGT
34412287 ATGATATGCAC
1 ATGATATGCAC
34412298 ATGATATG--C
1 ATGATATGCAC
34412307 ATGATATGCAC
1 ATGATATGCAC
* *
34412318 ATGACATG--T
1 ATGATATGCAC
34412327 ATGATATGCAC
1 ATGATATGCAC
*
34412338 ATGATATG--T
1 ATGATATGCAC
34412347 ATGATATGCAC
1 ATGATATGCAC
34412358 A
1 A
34412359 CGAGATGTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
9 24 0.49
11 25 0.51
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34412366 original size:20 final size:20
Alignment explanation
Indices: 34412276--34412358 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
34412266 ATTTTGATAA
34412276 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
34412296 ACATGATATGCATGATATGC
1 ACATGATATGTATGATATGC
*
34412316 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
34412336 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
34412356 ACA
1 ACA
34412359 CGAGATGTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:34412481 original size:47 final size:47
Alignment explanation
Indices: 34412412--34412509 Score: 153
Period size: 47 Copynumber: 2.1 Consensus size: 47
34412402 AGGAAGTGCA
* *
34412412 AAAGGGCTTTTGCCCCAGTTATT-AAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAAAGGCTT-TGCCCCAGTTATT
34412459 AAAGGGCTTATGCCCCAGTTATTAAAAAAAGGCTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT-AAAAAAGGCTTTGCCCCAGTTATT
34412507 AAA
1 AAA
34412510 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
47 22 0.47
48 16 0.34
49 9 0.19
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAAAGGCTTTGCCCCAGTTATT
Found at i:34412526 original size:25 final size:24
Alignment explanation
Indices: 34412411--34412530 Score: 156
Period size: 24 Copynumber: 5.0 Consensus size: 24
34412401 GAGGAAGTGC
*
34412411 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
34412435 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
34412459 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
34412482 AAAAAAAGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
34412507 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34412531 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
23 28 0.33
24 29 0.34
25 21 0.24
26 8 0.09
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:34412759 original size:31 final size:31
Alignment explanation
Indices: 34412721--34412784 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
34412711 CGTTTACCGT
34412721 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
34412752 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34412783 AA
1 AA
34412785 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:34413585 original size:24 final size:25
Alignment explanation
Indices: 34413553--34413603 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
34413543 CTATTGTAAA
34413553 TGTGTATTATATGCAATGATTA-TT
1 TGTGTATTATATGCAATGATTAGTT
*
34413577 TGTGTATTATATGTAATGATTAGTT
1 TGTGTATTATATGCAATGATTAGTT
34413602 TG
1 TG
34413604 GACTTCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (25 bp):
TGTGTATTATATGCAATGATTAGTT
Found at i:34416087 original size:27 final size:27
Alignment explanation
Indices: 34415957--34416087 Score: 181
Period size: 27 Copynumber: 4.9 Consensus size: 27
34415947 ATTACCAAAG
* *
34415957 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
34415984 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
34416011 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
34416038 TACACTTGATCTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
34416065 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
34416088 AAAATACCCT
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:34416112 original size:54 final size:54
Alignment explanation
Indices: 34415984--34416114 Score: 145
Period size: 54 Copynumber: 2.4 Consensus size: 54
34415974 ATTACCGTTT
* * * ****
34415984 TACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACTAAAA
* * * *
34416038 TACACTTGATCTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACTAAAA
* *
34416092 TACCCTTGGTTTACAAAATTACC
1 TACCCTTGATTTACAGAATTACC
34416115 AAAATACCCT
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.37
Consensus pattern (54 bp):
TACCCTTGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACTAAAA
Found at i:34416282 original size:27 final size:27
Alignment explanation
Indices: 34416065--34416294 Score: 178
Period size: 27 Copynumber: 8.4 Consensus size: 27
34416055 ATTACTGTTT
* * *
34416065 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
34416092 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* **
34416119 TACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
***
34416146 TACCAC-TGGTTTGTGAAATTACCAAAA
1 TACC-CTTGGTTTACAAAATTACCAAAA
*** **
34416173 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * *
34416200 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGGTTTACAAAATTACCA-AAA
* ***
34416227 TACCCTTGACTTT-CTAAAAATTATGGAAA
1 TACCCTTG-GTTTAC--AAAATTACCAAAA
* **
34416256 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
34416283 TACCCTTGGTTT
1 TACCCTTGGTTT
34416295 GTAGATTTAC
Statistics
Matches: 167, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.02
27 140 0.84
28 7 0.04
29 17 0.10
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:34416378 original size:27 final size:27
Alignment explanation
Indices: 34416348--34416439 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
34416338 ACCCCTATTA
*
34416348 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * * *
34416375 GGTAAAGTGATCATAAAGCCCCTATAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
34416402 AGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
34416429 GGTAAAATGAC
1 GGTAAAATGAC
34416440 GAATATGCCC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:34417169 original size:20 final size:20
Alignment explanation
Indices: 34417135--34417210 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
34417125 TGATACGTGG
34417135 GTATGATAT--ACATGAT-T
1 GTATGATATGCACATGATAT
34417152 GATATGATATGCACATGATAT
1 G-TATGATATGCACATGATAT
*
34417173 GCATGATATGCACATGATAT
1 GTATGATATGCACATGATAT
*
34417193 GTATGAAATGCACATGAT
1 GTATGATATGCACATGAT
34417211 GAATTCATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
17 1 0.02
18 8 0.15
20 41 0.79
21 2 0.04
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:34417171 original size:11 final size:11
Alignment explanation
Indices: 34417155--34417210 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
34417145 CATGATTGAT
34417155 ATGATATGCAC
1 ATGATATGCAC
34417166 ATGATATG--C
1 ATGATATGCAC
34417175 ATGATATGCAC
1 ATGATATGCAC
*
34417186 ATGATATG--T
1 ATGATATGCAC
*
34417195 ATGAAATGCAC
1 ATGATATGCAC
34417206 ATGAT
1 ATGAT
34417211 GAATTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34417305 original size:25 final size:25
Alignment explanation
Indices: 34417260--34417330 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
34417250 GAGGAAGTGC
**
34417260 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTT-TGCCCCAGTTTACCG
34417286 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
34417311 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
34417331 ATTAAAGAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
25 33 0.77
26 10 0.23
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:34417534 original size:42 final size:42
Alignment explanation
Indices: 34417475--34417562 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
34417465 TAGTCTCCCC
* *
34417475 AAATAGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATAGGCTTGCATACATTCATTGATATTTCATATGATATTG
*
34417517 AAATAGGCTTGCATACATTCATTGATATTTCATATGTTATTG
1 AAATAGGCTTGCATACATTCATTGATATTTCATATGATATTG
34417559 AAAT
1 AAAT
34417563 GGGACTATGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (42 bp):
AAATAGGCTTGCATACATTCATTGATATTTCATATGATATTG
Found at i:34417625 original size:31 final size:31
Alignment explanation
Indices: 34417590--34417668 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
34417580 CATTTACAAT
34417590 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
34417621 AAAGGCTTCGGCCCAGTGATTTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
34417652 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
34417669 AACCGTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:34418410 original size:19 final size:19
Alignment explanation
Indices: 34418386--34418425 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
34418376 GTTTGGGGTG
*
34418386 TTACAGGTTAGATGCGGTA
1 TTACAGGCTAGATGCGGTA
*
34418405 TTACAGGCTAGATGTGGTA
1 TTACAGGCTAGATGCGGTA
34418424 TT
1 TT
34418426 TTGGTTGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.25, C:0.10, G:0.30, T:0.35
Consensus pattern (19 bp):
TTACAGGCTAGATGCGGTA
Found at i:34427044 original size:20 final size:20
Alignment explanation
Indices: 34426987--34427044 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
34426977 AACATGGTAC
*
34426987 GTATGATATGCACATGACAT
1 GTATGATATGCACATGATAT
*
34427007 GTATGATATGCACCTGATAT
1 GTATGATATGCACATGATAT
*
34427027 GTATGATATGCACGTGAT
1 GTATGATATGCACATGAT
34427045 GTAATCATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:34427150 original size:24 final size:23
Alignment explanation
Indices: 34427094--34427260 Score: 210
Period size: 24 Copynumber: 7.0 Consensus size: 23
34427084 GAGGAAGTGA
34427094 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
34427117 TAAAGGGCTTGTGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
34427140 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
**
34427164 CAAAAGGGCTTCCGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
34427188 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
34427211 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
34427236 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34427260 A
1 A
34427261 TGATAAAGCA
Statistics
Matches: 126, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
23 41 0.33
24 74 0.59
25 11 0.09
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:34427163 original size:47 final size:47
Alignment explanation
Indices: 34427094--34427260 Score: 221
Period size: 47 Copynumber: 3.5 Consensus size: 47
34427084 GAGGAAGTGA
* *
34427094 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTGTGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTCTGCCCCAGTTAT
* *
34427140 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTCCGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTCTGCCCCAGTTAT
* *
34427188 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTCTGCCCCAGTTA-T
*
34427236 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
34427261 TGATAAAGCA
Statistics
Matches: 107, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
47 65 0.61
48 30 0.28
49 12 0.11
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTCTGCCCCAGTTAT
Found at i:34427210 original size:71 final size:71
Alignment explanation
Indices: 34427094--34427259 Score: 244
Period size: 71 Copynumber: 2.3 Consensus size: 71
34427084 GAGGAAGTGA
* * *
34427094 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTGTGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
34427159 GTTATC
66 GTTATC
* *
34427165 AAAAGGGCTTCCGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
34427230 GTTATT
66 GTTATC
*
34427236 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
34427260 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
71 74 0.87
72 11 0.13
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:34435142 original size:20 final size:20
Alignment explanation
Indices: 34435085--34435142 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
34435075 AACATGGTAC
*
34435085 GTATGATATGCACATGACAT
1 GTATGATATGCACATGATAT
*
34435105 GTATGATATGCACCTGATAT
1 GTATGATATGCACATGATAT
*
34435125 GTATGATATGCACGTGAT
1 GTATGATATGCACATGAT
34435143 GTAATCATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:34435248 original size:24 final size:23
Alignment explanation
Indices: 34435192--34435358 Score: 183
Period size: 24 Copynumber: 7.0 Consensus size: 23
34435182 GAGGAAGTGA
*
34435192 AAAAGGGTTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* * *
34435215 TAAAGGGCTTGTGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
34435238 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
34435262 CAAAAGGGCTTACGCCCCAATTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
34435286 TAATGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
34435309 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
34435334 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34435358 A
1 A
34435359 TGATAAAGCA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
23 38 0.31
24 72 0.60
25 11 0.09
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:34435261 original size:47 final size:47
Alignment explanation
Indices: 34435192--34435358 Score: 185
Period size: 47 Copynumber: 3.5 Consensus size: 47
34435182 GAGGAAGTGA
* * * *
34435192 AAAAGGGTTTATGCCCCAGTTAT-TAAAGGGCTTGTGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
34435238 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAATTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
34435286 TAATGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
34435334 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
34435359 TGATAAAGCA
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
47 62 0.61
48 27 0.27
49 12 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:34435308 original size:71 final size:71
Alignment explanation
Indices: 34435192--34435343 Score: 214
Period size: 71 Copynumber: 2.1 Consensus size: 71
34435182 GAGGAAGTGA
* * * * * *
34435192 AAAAGGGTTTATGCCCCAGTTATTAAAGGGCTTGTGCCCTAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
34435257 GTTATC
66 GTTATC
* *
34435263 AAAAGGGCTTACGCCCCAATTATTAATGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
34435328 GTTATT
66 GTTATC
34435334 AAAAGAGGCT
1 AAAAG-GGCT
34435344 AGGCCTCCAG
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
71 67 0.94
72 4 0.06
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:34437518 original size:39 final size:39
Alignment explanation
Indices: 34437464--34437698 Score: 371
Period size: 39 Copynumber: 6.0 Consensus size: 39
34437454 CAAGACACTA
* *
34437464 GAAATGTATCCGGGCTAAAGTTCCGCAGGCTTCGTACTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
** *
34437503 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTATGCTA
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
34437542 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
34437581 GAAATGTATCCGGGCTAAAGCCCCGCTGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
34437620 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTACTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* * *
34437659 GAAATGTATCCGAGCTAAAGTCCCGTAGGCTTTGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
34437698 G
1 G
34437699 TAATATAATT
Statistics
Matches: 179, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 179 1.00
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:34440077 original size:13 final size:13
Alignment explanation
Indices: 34440059--34440084 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34440049 TGCAATGTTG
34440059 AAGAAATTAGAGA
1 AAGAAATTAGAGA
34440072 AAGAAATTAGAGA
1 AAGAAATTAGAGA
34440085 TTTTCCTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (13 bp):
AAGAAATTAGAGA
Found at i:34442563 original size:24 final size:24
Alignment explanation
Indices: 34442532--34442612 Score: 144
Period size: 24 Copynumber: 3.4 Consensus size: 24
34442522 AAAAGACATA
34442532 ATCGGGAAGTTCACAAAGAACCAT
1 ATCGGGAAGTTCACAAAGAACCAT
*
34442556 ATTGGGAAGTTCACAAAGAACCAT
1 ATCGGGAAGTTCACAAAGAACCAT
*
34442580 ATCGGGAAGTTCACAAAGAATCAT
1 ATCGGGAAGTTCACAAAGAACCAT
34442604 ATCGGGAAG
1 ATCGGGAAG
34442613 CCCTGGATAG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (24 bp):
ATCGGGAAGTTCACAAAGAACCAT
Found at i:34451339 original size:40 final size:40
Alignment explanation
Indices: 34451292--34451465 Score: 235
Period size: 40 Copynumber: 4.3 Consensus size: 40
34451282 GACTTCTGGT
* *
34451292 CTTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGA
1 CTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGA
* *
34451332 CTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGT
1 CTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGA
*
34451372 CTTAGCCCGGATATAG-CAACTCGCACAAATGCCTTC-GGA
1 CTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGA
* * * *
34451411 TCTTAGTCCGAATATAGTCACTAGCATAAAAGCCTTCGGGA
1 -CTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGA
34451452 CTTAGCCCGGATAT
1 CTTAGCCCGGATAT
34451466 CATTCGAATA
Statistics
Matches: 116, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
39 3 0.03
40 109 0.94
41 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGA
Found at i:34457065 original size:21 final size:21
Alignment explanation
Indices: 34457031--34457080 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
34457021 TGCAAAGCAG
*
34457031 ACACGGCCACGTAGAAATCTC
1 ACACGCCCACGTAGAAATCTC
*
34457052 ACACGCCCATGTAGAAATCTC
1 ACACGCCCACGTAGAAATCTC
*
34457073 ACATGCCC
1 ACACGCCC
34457081 GAGTGAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.36, G:0.16, T:0.16
Consensus pattern (21 bp):
ACACGCCCACGTAGAAATCTC
Found at i:34457147 original size:17 final size:17
Alignment explanation
Indices: 34457125--34457157 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
34457115 ACACTGTGTG
34457125 TGGCACCAAAAATCACT
1 TGGCACCAAAAATCACT
34457142 TGGCACCAAAAATCAC
1 TGGCACCAAAAATCAC
34457158 CCAAAAACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.30, G:0.12, T:0.15
Consensus pattern (17 bp):
TGGCACCAAAAATCACT
Found at i:34457860 original size:19 final size:18
Alignment explanation
Indices: 34457826--34457868 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
34457816 AAAAAAATAC
34457826 AATAAAATAAATAACATA
1 AATAAAATAAATAACATA
*
34457844 AATAAATATATATAACATA
1 AATAAA-ATAAATAACATA
34457863 AA-AAAA
1 AATAAAA
34457869 CAAAACTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 9 0.39
19 13 0.57
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (18 bp):
AATAAAATAAATAACATA
Found at i:34463806 original size:26 final size:24
Alignment explanation
Indices: 34463754--34463807 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
34463744 CAGTTTTATC
34463754 TTTATTTATCTTCTTTAAGTACTT
1 TTTATTTATCTTCTTTAAGTACTT
*
34463778 TTTATTTGATTTTCCTTTAA-TACTAT
1 TTTATTT-ATCTT-CTTTAAGTACT-T
34463804 TTTA
1 TTTA
34463808 ATTTTAGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 7 0.27
25 8 0.31
26 11 0.42
ACGTcount: A:0.22, C:0.11, G:0.04, T:0.63
Consensus pattern (24 bp):
TTTATTTATCTTCTTTAAGTACTT
Found at i:34471888 original size:40 final size:40
Alignment explanation
Indices: 34471840--34471964 Score: 146
Period size: 40 Copynumber: 3.1 Consensus size: 40
34471830 CGTTTGAATG
*
34471840 AAAAATGCCGCCAAAGAATAAGCATTAGCGGCGCTTTTTA
1 AAAAATGCCGCTAAAGAATAAGCATTAGCGGCGCTTTTTA
* **
34471880 AAAAATGCCACTAAAGAACGAGCATTAGCGGCGCTTTTTA
1 AAAAATGCCGCTAAAGAATAAGCATTAGCGGCGCTTTTTA
* * * * *
34471920 AAAAACGCCGCTATAAG-TTCACCTTTAGCGGCGC-TTTTA
1 AAAAATGCCGCTA-AAGAATAAGCATTAGCGGCGCTTTTTA
34471959 AAAAAT
1 AAAAAT
34471965 TCCACTTGTA
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 10 0.14
40 59 0.82
41 3 0.04
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (40 bp):
AAAAATGCCGCTAAAGAATAAGCATTAGCGGCGCTTTTTA
Found at i:34473948 original size:27 final size:27
Alignment explanation
Indices: 34473907--34474045 Score: 147
Period size: 27 Copynumber: 5.1 Consensus size: 27
34473897 AGGAAGCGTC
*
34473907 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
34473934 CTAGTGGCTCTGCCACATATATCTTAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
*
34473961 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACAAATATCTGA-T
* *
34473988 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
34474016 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
34474042 CTGG
1 CTGG
34474046 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 11, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
26 6 0.06
27 76 0.78
28 15 0.15
29 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:34473995 original size:54 final size:55
Alignment explanation
Indices: 34473907--34474045 Score: 178
Period size: 54 Copynumber: 2.6 Consensus size: 55
34473897 AGGAAGCGTC
* * *
34473907 CTGGTGGCTATGCCACAAATATCTGA-TCTAGTGGCTCTGCCAC-ATATATCT-TAT
1 CTGGTGGCTCTGCCACATATATCT-ATTCTGGTGGCTCTGCCACGAT-TATCTGTAT
34473961 CTGGTGGCTCTGCCACATATATCTATTCTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTATTCTGGTGGCTCTGCCACGATTATCTGTAT
* * *
34474016 CTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 CTGGTGGCTCTGCCACATATATCTATTCTGG
34474046 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
53 1 0.01
54 54 0.71
55 21 0.28
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (55 bp):
CTGGTGGCTCTGCCACATATATCTATTCTGGTGGCTCTGCCACGATTATCTGTAT
Found at i:34475674 original size:15 final size:15
Alignment explanation
Indices: 34475650--34475710 Score: 54
Period size: 14 Copynumber: 4.2 Consensus size: 15
34475640 CTATTTTAAA
* *
34475650 GTTTATGGATTATGG
1 GTTTAAGGATTAGGG
*
34475665 GTTTAAGGATTA-TG
1 GTTTAAGGATTAGGG
* *
34475679 GTTGAAGGGTT-GGG
1 GTTTAAGGATTAGGG
*
34475693 GTTTAAGGCTTAGGG
1 GTTTAAGGATTAGGG
34475708 GTT
1 GTT
34475711 AGGGATTAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
14 20 0.54
15 17 0.46
ACGTcount: A:0.20, C:0.02, G:0.39, T:0.39
Consensus pattern (15 bp):
GTTTAAGGATTAGGG
Found at i:34475782 original size:32 final size:32
Alignment explanation
Indices: 34475745--34475807 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
34475735 AAAGATTAGA
*
34475745 CTTTATATATATTAAATGGTTTAGGATTTAAG
1 CTTTATATATATTAAATGGTTTAAGATTTAAG
34475777 CTTTATATATATTAAATGGTTTAAGATTTAA
1 CTTTATATATATTAAATGGTTTAAGATTTAA
34475808 AGTTTACTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.48
Consensus pattern (32 bp):
CTTTATATATATTAAATGGTTTAAGATTTAAG
Found at i:34479579 original size:44 final size:44
Alignment explanation
Indices: 34479530--34479618 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
34479520 GTTATCGCTT
*
34479530 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
1 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATACCTTATA
34479574 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATACCTTATA
1 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATACCTTATA
34479618 T
1 T
34479619 GTTGCTATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.46
Consensus pattern (44 bp):
TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATACCTTATA
Found at i:34481389 original size:19 final size:21
Alignment explanation
Indices: 34481361--34481408 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
34481351 TTATTATTTA
34481361 TTTTAGTTTTGATTCTAA-AT
1 TTTTAGTTTTGATTCTAATAT
* *
34481381 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTCTAATAT
34481401 TTTTAGTT
1 TTTTAGTT
34481409 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAGTTTTGATTCTAATAT
Found at i:34481743 original size:85 final size:85
Alignment explanation
Indices: 34481567--34481751 Score: 246
Period size: 85 Copynumber: 2.2 Consensus size: 85
34481557 ATTTCATTAC
* * * *
34481567 CTTTAGCGACGTTTTTGGGTAAAGCGCCGCTAAAGGTCATGACATTTAGCGGCGTTTGTGTGAAA
1 CTTTAGCGACGTTTGTGGGAAAAGCACCGCTAAAGGTCATGACATTTAGCGGCGTTTGTGAGAAA
**
34481632 AGCGCTGCTAAAGGTCATGA
66 AGCGCCACTAAAGGTCATGA
* * *
34481652 CTTTTAG-GGCGTTTGTGGGAAAAGCATCGCTAAAGGTCATGACTTTTAGCGGCGTTTGTGAGAA
1 C-TTTAGCGACGTTTGTGGGAAAAGCACCGCTAAAGGTCATGACATTTAGCGGCGTTTGTGAGAA
*
34481716 AAGTGCCACTAAAGGTCATGA
65 AAGCGCCACTAAAGGTCATGA
*
34481737 TCTTTAGCAACGTTT
1 -CTTTAGCGACGTTT
34481752 TTTTAAATAA
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
85 74 0.87
86 11 0.13
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (85 bp):
CTTTAGCGACGTTTGTGGGAAAAGCACCGCTAAAGGTCATGACATTTAGCGGCGTTTGTGAGAAA
AGCGCCACTAAAGGTCATGA
Found at i:34481751 original size:43 final size:43
Alignment explanation
Indices: 34481568--34481741 Score: 233
Period size: 43 Copynumber: 4.0 Consensus size: 43
34481558 TTTCATTACC
* * * *
34481568 TTTAGCGACGTTTTTGGGTAAAGCGCCGCTAAAGGTCATGACA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACT
* *
34481611 TTTAGCGGCGTTTGTGTGAAAAGCGCTGCTAAAGGTCATGACT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACT
**
34481654 TTTAG-GGCGTTTGTGGGAAAAGCATCGCTAAAGGTCATGACT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACT
* * *
34481696 TTTAGCGGCGTTTGTGAGAAAAGTGCCACTAAAGGTCATGATCT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA-CT
34481740 TT
1 TT
34481742 AGCAACGTTT
Statistics
Matches: 114, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
42 38 0.33
43 72 0.63
44 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACT
Done.