Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 57 of 770
Found at i:16598365 original size:46 final size:46
Alignment explanation
Indices: 16598214--16598388 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
16598204 TGTAACCCGC
* * *
16598214 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
16598260 CCATAAGTGAACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
16598309 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
16598352 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16598389 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 22 0.20
46 49 0.45
47 24 0.22
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:16600203 original size:27 final size:27
Alignment explanation
Indices: 16600173--16600224 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
16600163 GTAAATCAAC
16600173 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
16600200 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
16600225 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:16600346 original size:27 final size:27
Alignment explanation
Indices: 16600181--16600429 Score: 128
Period size: 27 Copynumber: 9.1 Consensus size: 27
16600171 ACAAACCAAA
* * *
16600181 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTGTAAATCAAG
16600208 GGTATTTCTA-TAATTTT-TAGAAAGTCAAG
1 GGTATTT-TAGTAATTTTGT--AAA-TCAAG
* * *
16600237 GGTATTTCT-GTAACTTTGTAAATTAGG
1 GGTATTT-TAGTAATTTTGTAAATCAAG
* ** **
16600264 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
*** *
16600291 GGT-TTTTCAGTAATTTCACAAACCAAG
1 GGTATTTT-AGTAATTTTGTAAATCAAG
*
16600318 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
**** *
16600345 GGTAAAACAGTAATTCTGTAAATCAAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
**** * *
16600372 GGTAAAACAGTAATTCTATAAATCAAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
*** * *
16600399 GGTAAAATAGTAATTCTATAAATCAAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
16600426 GGTA
1 GGTA
16600430 AAACAGTAAT
Statistics
Matches: 184, Mismatches: 29, Indels: 18
0.80 0.13 0.08
Matches are distributed among these distances:
26 6 0.03
27 148 0.80
28 11 0.06
29 18 0.10
30 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTGTAAATCAAG
Found at i:16600942 original size:27 final size:27
Alignment explanation
Indices: 16600327--16600935 Score: 707
Period size: 27 Copynumber: 22.6 Consensus size: 27
16600317 GGGTATTTTA
* * *
16600327 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16600354 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* * **
16600381 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16600408 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
*
16600435 GTAATTCA-GTAAATCGAGGGTAAAACG
1 GTAATT-ATGTAAATCAAGGGTAAAACG
* * * *
16600462 GTAATTCTGTAAGTCGAGGTTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16600489 ATAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16600516 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16600543 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16600570 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16600597 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16600624 GTAATTCTGTAAGTCAAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16600651 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16600678 GTAATTTTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
*
16600705 ATAATTATGTAAATCAAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16600732 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16600759 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16600786 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16600813 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16600840 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16600867 ATAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16600894 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
*
16600921 GTAATTCTGTAAATC
1 GTAATTATGTAAATC
16600936 GGGGGTACTT
Statistics
Matches: 502, Mismatches: 78, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
27 502 1.00
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTATGTAAATCAAGGGTAAAACG
Found at i:16600969 original size:27 final size:27
Alignment explanation
Indices: 16600939--16601037 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
16600929 GTAAATCGGG
*
16600939 GGTACTTT-AGTAATTTTACAAGTCGAA
1 GGTA-TTTCAGTAATTTTACAAATCGAA
* * *
16600966 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAA
* *
16600993 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTTCAGTAATTTTACAAATCGAA
*
16601019 GGGTATTTCGGTAATTTTA
1 -GGTATTTCAGTAATTTTA
16601038 GTAAACTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 5 0.08
27 54 0.92
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCGAA
Found at i:16600977 original size:54 final size:53
Alignment explanation
Indices: 16600931--16601035 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 53
16600921 GTAATTCTGT
* *
16600931 AAATCGGGGGTACTTT-AGTAATTTTACAAGTCGAA-GGTATTTCGGTAAATTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCGGT-AATTTAC
* *
16600985 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTT
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTT
16601036 TAGTAAACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
53 11 0.24
54 34 0.76
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.37
Consensus pattern (53 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTTAC
Found at i:16601051 original size:27 final size:27
Alignment explanation
Indices: 16600947--16601052 Score: 74
Period size: 27 Copynumber: 3.9 Consensus size: 27
16600937 GGGGTACTTT
* *
16600947 AGTAATTTTACAAGTCGAAG-GTATTTC
1 AGTAATTTTACAA-ACTAAGAGTATTTC
* * * *
16600974 GGTAAATTTACAAA-TCGAGGGTATTTC
1 AGTAATTTTACAAACT-AAGAGTATTTC
* *
16601001 AGTATTTTTACAAACTAAGGGTATTTC
1 AGTAATTTTACAAACTAAGAGTATTTC
* *
16601028 GGTAATTTTAGTAAACTAA-AGTATT
1 AGTAATTTTA-CAAACTAAGAGTATT
16601053 CTAAACAGGG
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (27 bp):
AGTAATTTTACAAACTAAGAGTATTTC
Found at i:16603472 original size:31 final size:31
Alignment explanation
Indices: 16603434--16603497 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
16603424 CCTTTTCATA
16603434 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
16603465 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
16603496 TT
1 TT
16603498 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:16603740 original size:24 final size:24
Alignment explanation
Indices: 16603689--16603855 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
16603679 GCTTTATCAT
* *
16603689 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
16603714 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
16603738 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
16603761 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
16603785 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
16603809 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
16603833 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
16603856 TCACTTCCTC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 100 0.74
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:16603789 original size:71 final size:71
Alignment explanation
Indices: 16603688--16603855 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
16603678 TGCTTTATCA
*
16603688 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
16603752 AGCCCTTT
64 AGCCCTTT
* * **
16603760 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
16603825 CCCTTT
66 CCCTTT
16603831 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
16603856 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 53 0.60
72 36 0.40
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:16603931 original size:20 final size:20
Alignment explanation
Indices: 16603906--16603965 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
16603896 TATGATTACC
16603906 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
16603926 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
16603946 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
16603966 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:16604040 original size:25 final size:25
Alignment explanation
Indices: 16604008--16604055 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16603998 ATACATAAAC
* * *
16604008 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
16604033 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
16604056 CATATTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:16605247 original size:27 final size:27
Alignment explanation
Indices: 16605212--16605267 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
16605202 GGGCATATTC
* *
16605212 GTCATTTTACCATATAGGGG-TATTACA
1 GTCACTTTACCATACAGGGGCT-TTACA
*
16605239 GTCACTTTACCCTACAGGGGCTTTACA
1 GTCACTTTACCATACAGGGGCTTTACA
16605266 GT
1 GT
16605268 GTTTTACCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACA
Found at i:16605359 original size:27 final size:27
Alignment explanation
Indices: 16605329--16605380 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
16605319 GTAAATCAAC
16605329 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
16605356 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
16605381 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:16605502 original size:27 final size:27
Alignment explanation
Indices: 16605337--16605585 Score: 110
Period size: 27 Copynumber: 9.1 Consensus size: 27
16605327 ACAAACCAAA
* * *
16605337 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTGTAAATCAAG
16605364 GGTATTTCTA-TAATTTT-TAGAAAGTCAAG
1 GGTATTT-TAGTAATTTTGT--AAA-TCAAG
* * *
16605393 GGTATTTCT-GTAACTTTGTAAATTAGG
1 GGTATTT-TAGTAATTTTGTAAATCAAG
* ** **
16605420 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
* *** **
16605447 GGT-TTTTCGGTAATTTCACAAGCCAAG
1 GGTATTTT-AGTAATTTTGTAAATCAAG
*
16605474 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
**** *
16605501 GGTAAAACAGTAATTCTGTAAATCAAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
**** * *
16605528 GGTAAAACAGTAATTCTATAAATCAAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
*** * *
16605555 GGTAAAATAGTAATTCTATAAATCAAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
16605582 GGTA
1 GGTA
16605586 AAACAGTAAT
Statistics
Matches: 182, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.03
27 146 0.80
28 11 0.06
29 18 0.10
30 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTGTAAATCAAG
Found at i:16605586 original size:27 final size:27
Alignment explanation
Indices: 16605483--16606090 Score: 680
Period size: 27 Copynumber: 22.6 Consensus size: 27
16605473 GGGTATTTTA
* * *
16605483 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16605510 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* * **
16605537 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16605564 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16605591 GTAATTCA-ATAAATCGAGGGTAAAACG
1 GTAATT-ATGTAAATCAAGGGTAAAACG
* * *
16605618 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16605645 ATAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16605672 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16605699 GTAATTCTGTAAGTCAAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16605726 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16605753 GTAATTATTTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * * *
16605780 GTAATTCTATAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16605807 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16605834 GTAATTCTGTAAGTCAAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16605861 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16605888 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16605915 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16605942 ATAATTATGTAAATCAGGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16605969 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16605996 GTAATTCTGTAAGTCGA-GGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16606022 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16606049 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
*
16606076 GTAATTCTGTAAATC
1 GTAATTATGTAAATC
16606091 GGGGTACTTT
Statistics
Matches: 499, Mismatches: 79, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
26 21 0.04
27 478 0.96
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTATGTAAATCAAGGGTAAAACG
Found at i:16606132 original size:27 final size:26
Alignment explanation
Indices: 16606102--16606191 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 26
16606092 GGGTACTTTA
16606102 GTAATTTTACAAGTCGAAGGTATTTCG
1 GTAATTTTACAA-TCGAAGGTATTTCG
* * *
16606129 GTAAATTTACAAATCGAGGGTATTTCA
1 GTAATTTTAC-AATCGAAGGTATTTCG
* * *
16606156 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAATCGAA-GGTATTTCG
16606183 GTAATTTTA
1 GTAATTTTA
16606192 GTAAACTAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
26 4 0.08
27 45 0.88
28 2 0.04
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (26 bp):
GTAATTTTACAATCGAAGGTATTTCG
Found at i:16606178 original size:54 final size:53
Alignment explanation
Indices: 16606086--16606191 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 53
16606076 GTAATTCTGT
*
16606086 AAATCGGGGTACTTTAGTAATTTTACAAGTCGAAGGTATTTCGGTAAATTTAC
1 AAATCGGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCGGTAAATTTAC
* * *
16606139 AAATCGAGGGTA-TTTCAGTATTTTTACAA-ACTAAGGGTATTTCGGTAATTTTA
1 AAATCG-GGGTACTTT-AGTAATTTTACAAGACGAA-GGTATTTCGGTAAATTTA
16606192 GTAAACTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
53 12 0.26
54 34 0.74
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (53 bp):
AAATCGGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCGGTAAATTTAC
Found at i:16607101 original size:20 final size:20
Alignment explanation
Indices: 16607076--16607117 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
16607066 ATTTAAACAT
*
16607076 AGAAACTTATACATTAATAA
1 AGAAACTCATACATTAATAA
16607096 AGAAACTCATACATTAATAA
1 AGAAACTCATACATTAATAA
16607116 AG
1 AG
16607118 CATTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.26
Consensus pattern (20 bp):
AGAAACTCATACATTAATAA
Found at i:16611426 original size:27 final size:27
Alignment explanation
Indices: 16611396--16611510 Score: 203
Period size: 27 Copynumber: 4.3 Consensus size: 27
16611386 TTTGGTTTAC
16611396 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
16611423 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
16611450 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
16611477 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
16611504 GAAATTA
1 AAAATTA
16611511 TTGAAATACC
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:16611532 original size:81 final size:81
Alignment explanation
Indices: 16611396--16611575 Score: 211
Period size: 81 Copynumber: 2.2 Consensus size: 81
16611386 TTTGGTTTAC
* * **
16611396 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAA
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCGAGCCTGTAAAATTATCAA
*
16611461 AATACCCCTAG-TTTGT
66 AATA-CCCTAGACTTGT
* *** **
16611477 AAAATTACCAAAATACCCCTAATTTGTGAAATTATTGAAATACCCTCGA-CCTGTAAAATTATTG
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCC-CGAGCCTGTAAAATTATCA
*
16611541 AAATACCCTCGACTTGT
65 AAATACCCTAGACTTGT
*
16611558 AAAATTACCAAAGTACCC
1 AAAATTACCAAAATACCC
16611576 TCGATTTATA
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 5 0.06
81 77 0.92
82 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCGAGCCTGTAAAATTATCAA
AATACCCTAGACTTGT
Found at i:16611574 original size:27 final size:26
Alignment explanation
Indices: 16611396--16611593 Score: 171
Period size: 27 Copynumber: 7.3 Consensus size: 26
16611386 TTTGGTTTAC
*
16611396 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCGA-TTTGT
*
16611423 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCGA-TTTGT
* *
16611450 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCGA-TTTGT
*
16611477 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCC-GATTTGT
* *** **
16611504 GAAATTATTGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCC-CGATTTGT
*** *
16611531 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCC-CGATTTGT
* *
16611558 AAAATTACCAAAGTACCCTCGATTTAT
1 AAAATTACCAAAATACCC-CGATTTGT
*
16611585 AGAATTACC
1 AAAATTACC
16611594 GTTTCACCCT
Statistics
Matches: 150, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
27 148 0.99
28 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCCGATTTGT
Found at i:16611602 original size:27 final size:27
Alignment explanation
Indices: 16611571--16611887 Score: 390
Period size: 27 Copynumber: 11.8 Consensus size: 27
16611561 ATTACCAAAG
*
16611571 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* ** * *
16611598 CACCCTCGATTTGTAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
16611625 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
16611652 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
16611679 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
16611706 TACCC-CAATTTACATAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
16611732 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
*
16611759 TACCCTCGATTTACAGAATTATCG-TT
1 TACCCTCGATTTACAGAATTACCGTTT
*
16611785 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
16611812 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
16611839 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
16611866 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
16611888 TAAAATACCC
Statistics
Matches: 254, Mismatches: 31, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
26 48 0.19
27 204 0.80
28 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:16611760 original size:80 final size:81
Alignment explanation
Indices: 16611571--16611887 Score: 392
Period size: 80 Copynumber: 3.9 Consensus size: 81
16611561 ATTACCAAAG
* * * ** *
16611571 TACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTGTAAAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
16611636 TACAGAATTACCGTTT
66 TACAGAATTACCGTTT
* * * *
16611652 TACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCC-CAAT
1 TACCCTCGA-TTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGAT
* *
16611715 TTACATAATTACTGTTT
65 TTACAGAATTACCGTTT
* * *
16611732 TACCC-CTGATTTACATAATTA-TCGTTTTACCCTCGATTTACAGAATTATCG-TTTACCCTCGA
1 TACCCTC-GATTTACAGAATTACT-GTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGA
*
16611794 TTTACAGAATTACCATTT
64 TTTACAGAATTACCGTTT
* * *
16611812 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
*
16611877 TACAAAATTAC
66 TACAGAATTAC
16611888 TAAAATACCC
Statistics
Matches: 203, Mismatches: 25, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
79 9 0.04
80 118 0.58
81 76 0.37
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
TACAGAATTACCGTTT
Found at i:16613205 original size:20 final size:20
Alignment explanation
Indices: 16613180--16613242 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
16613170 ATTTTGATAA
16613180 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
16613200 ACATGACATGTGTGATATGC
1 ACATGATATGTATGATATGC
16613220 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
16613240 ACA
1 ACA
16613243 CGAGATGTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:16613420 original size:23 final size:23
Alignment explanation
Indices: 16613296--16613506 Score: 293
Period size: 24 Copynumber: 9.0 Consensus size: 23
16613286 GAGGAAGTGA
16613296 AAAAGGGCTTATG-CCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
16613318 TAAAGGG-TTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
16613340 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
16613364 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
16613388 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
16613412 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
16613435 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
16613458 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
16613482 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
16613506 A
1 A
16613507 TGATAAAGCA
Statistics
Matches: 174, Mismatches: 9, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.03
22 15 0.09
23 70 0.40
24 74 0.43
25 10 0.06
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:16613457 original size:46 final size:47
Alignment explanation
Indices: 16613296--16613506 Score: 304
Period size: 46 Copynumber: 4.5 Consensus size: 47
16613286 GAGGAAGTGA
*
16613296 AAAAGGGCTTATG-CCCAGTTATTAAAGGG-TTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
16613341 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
* *
16613389 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
16613435 TAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
*
16613482 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
16613507 TGATAAAGCA
Statistics
Matches: 151, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
45 13 0.09
46 51 0.34
47 37 0.25
48 50 0.33
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:16613732 original size:31 final size:31
Alignment explanation
Indices: 16613697--16613760 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
16613687 CGTTTACCGT
*
16613697 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
16613728 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
16613759 AA
1 AA
16613761 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:16616573 original size:27 final size:27
Alignment explanation
Indices: 16616543--16616656 Score: 194
Period size: 27 Copynumber: 4.3 Consensus size: 27
16616533 TTTGGTTTAC
16616543 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
16616570 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
16616597 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
16616624 AAAATTACCAAAATA-CCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
16616650 GAAATTA
1 AAAATTA
16616657 TTGAAATACC
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
26 16 0.19
27 67 0.81
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:16616664 original size:80 final size:80
Alignment explanation
Indices: 16616543--16616722 Score: 202
Period size: 80 Copynumber: 2.2 Consensus size: 80
16616533 TTTGGTTTAC
* **
16616543 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTATCA
1 AAAATTACCAAAATA-CCCTAATTTGTAAAATTACCAAAATA-CCCTAGACCTGTAAAATTATCA
*
16616607 AAATACCCCTAG-TTTGT
64 AAATA-CCCTAGACTTGT
* *** * **
16616624 AAAATTACCAAAATACCCTAATTTGTGAAATTATTGAAATACCCTCGACCTGTAAAATTATTGAA
1 AAAATTACCAAAATACCCTAATTTGTAAAATTACCAAAATACCCTAGACCTGTAAAATTATCAAA
*
16616689 ATACCCTCGACTTGT
66 ATACCCTAGACTTGT
*
16616704 AAAATTACCAAAGTACCCT
1 AAAATTACCAAAATACCCT
16616723 CGATTTATAG
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 10 0.12
80 59 0.70
81 15 0.18
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTAATTTGTAAAATTACCAAAATACCCTAGACCTGTAAAATTATCAAA
ATACCCTAGACTTGT
Found at i:16616720 original size:27 final size:27
Alignment explanation
Indices: 16616543--16616765 Score: 193
Period size: 27 Copynumber: 8.3 Consensus size: 27
16616533 TTTGGTTTAC
*
16616543 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
*
16616570 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
* *
16616597 AAAATTATCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
*
16616624 AAAATTACCAAAATACCCT-AATTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* *** **
16616650 GAAATTATTGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCTCGATTTGT
*** *
16616677 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* *
16616704 AAAATTACCAAAGTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTCGATTTGT
* ****
16616731 AGAATTACCGTTTTACCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
16616758 AAAATTAC
1 AAAATTAC
16616766 GTTTTACCCT
Statistics
Matches: 169, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 20 0.12
27 149 0.88
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTGT
Found at i:16616774 original size:80 final size:81
Alignment explanation
Indices: 16616717--16617030 Score: 397
Period size: 80 Copynumber: 3.9 Consensus size: 81
16616707 ATTACCAAAG
* **
16616717 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTA-CGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
*
16616781 TACAGAATTACCGTTT
66 TACAGAATTACCATTT
** * * *
16616797 TACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCC-CAAT
1 TACCCTCGA-TTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGAT
* *
16616860 TTACATAATTA-CGTTT
65 TTACAGAATTACCATTT
* * * *
16616876 TACCC-CGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
16616940 TACAGAATTACCATTT
66 TACAGAATTACCATTT
* * * *
16616956 TACCCTCGATTTATA-AATTACTGTTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
*
16617020 TACAAAATTAC
66 TACAGAATTAC
16617031 TAAAATACCC
Statistics
Matches: 204, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
78 45 0.22
79 25 0.12
80 116 0.57
81 18 0.09
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
TACAGAATTACCATTT
Found at i:16616791 original size:53 final size:53
Alignment explanation
Indices: 16616717--16617030 Score: 393
Period size: 53 Copynumber: 5.9 Consensus size: 53
16616707 ATTACCAAAG
* *
16616717 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACGTTT
* * *
16616770 TACCCTCGATTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGA-TTTATAAAATTAC-GTTT
* * * *
16616824 TACCCTCGATTTATAGAATTACCGTTTTACCC-CAATTTACATAATTACGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACGTTT
* * * *
16616876 TACCC-CGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTA-CGTTT
* *
16616929 CACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAT-AAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTAC-GTTT
* * * *
16616982 TACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTAC
16617031 TAAAATACCC
Statistics
Matches: 228, Mismatches: 25, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
51 23 0.10
52 23 0.10
53 109 0.48
54 73 0.32
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (53 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACGTTT
Found at i:16616924 original size:132 final size:132
Alignment explanation
Indices: 16616717--16617030 Score: 454
Period size: 132 Copynumber: 2.4 Consensus size: 132
16616707 ATTACCAAAG
* * * **
16616717 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACGTTTTACCCTCGATTT
1 TACCCTCAATTTACAAAATTA-CGTTTTACCCTCGATTTACAAAATTACGTTTTACCCTCGATTT
* *
16616782 ACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTATAGAATTAC
65 ACAGAATTACCGTTTCACCCTCGA-TTTACAGAATTACCATTTTACCCTCGATTTATA-AATTAC
16616846 CGTTT
128 CGTTT
* *
16616851 TACCC-CAATTTACATAATTACGTTTTACCC-CGATTTACATAATTATCGTTTTACCCTCGATTT
1 TACCCTCAATTTACAAAATTACGTTTTACCCTCGATTTACAAAATTA-CGTTTTACCCTCGATTT
*
16616914 ACAGAATTACCGTTTCACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAATTACTG
65 ACAGAATTACCGTTTCACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAATTACCG
16616979 TTT
130 TTT
**
16616982 TACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTAC
1 TACCCTCAATTTACAAAATTAC-GTTTTACCCTCGATTTACAAAATTAC
16617031 TAAAATACCC
Statistics
Matches: 162, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
131 27 0.17
132 93 0.57
133 23 0.14
134 19 0.12
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (132 bp):
TACCCTCAATTTACAAAATTACGTTTTACCCTCGATTTACAAAATTACGTTTTACCCTCGATTTA
CAGAATTACCGTTTCACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAATTACCGT
TT
Found at i:16617031 original size:27 final size:27
Alignment explanation
Indices: 16616717--16617030 Score: 406
Period size: 27 Copynumber: 11.8 Consensus size: 27
16616707 ATTACCAAAG
*
16616717 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
16616744 TACCCTCGATTTGTAAAATTA-CGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
16616770 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
16616797 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
16616824 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
16616851 TACCC-CAATTTACATAATTA-CGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
16616876 TACCC-CGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
16616902 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
16616929 CACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
16616956 TACCCTCGATTTATA-AATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
16616982 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
16617009 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
16617031 TAAAATACCC
Statistics
Matches: 256, Mismatches: 25, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
25 24 0.09
26 68 0.27
27 163 0.64
28 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:16617057 original size:54 final size:53
Alignment explanation
Indices: 16616690--16617043 Score: 170
Period size: 53 Copynumber: 6.6 Consensus size: 53
16616680 ATTATTGAAA
* * * * * *
16616690 TACCCTCGACTTGT-AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGA-TT-TAAAAATTACTAAAATACCCTTGATTTACAAAATTACTGTTT
* ** * * *
16616744 TACCCTCGATTTGTAAAATTACGT--TTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTT-AAAAATTAC-TAAAATACCCTTGATTTACAAAATTACTGTTT
* *** * * * *
16616797 TACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGA-TTTA-AAAATTACTAAAATACCCTTGATTTACAAAATTACTGTTT
* * ** * *
16616851 TACCC-CAATTTACATAATTACGT--TTTACCC-CGATTTACATAATTA-TCGTTT
1 TACCCTCGATTTA-AAAATTAC-TAAAATACCCTTGATTTACAAAATTACT-GTTT
* **** * * **
16616902 TACCCTCGATTTACAGAATTAC-CGTTTCACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTA-AAAATTACTAAAAT-ACCCTTGATTTACAAAATTACTGTTT
* ****
16616956 TACCCTCGATTTATAAATTACTGTTTTACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTAAAAATTACTAAAATACCCTTGATTTACAAAATTACTGTTT
16617009 TACCCTCGATTTACAAAATTACTAAAATACCCTTG
1 TACCCTCGATTTA-AAAATTACTAAAATACCCTTG
16617044 GTTTGTGAAA
Statistics
Matches: 253, Mismatches: 29, Indels: 36
0.80 0.09 0.11
Matches are distributed among these distances:
51 22 0.09
52 27 0.11
53 103 0.41
54 101 0.40
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.38
Consensus pattern (53 bp):
TACCCTCGATTTAAAAATTACTAAAATACCCTTGATTTACAAAATTACTGTTT
Found at i:16618345 original size:20 final size:20
Alignment explanation
Indices: 16618320--16618380 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
16618310 ATTTTGATAA
16618320 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
16618340 ACATGACATG--TGATATGC
1 ACATGATATGTATGATATGC
16618358 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
16618378 ACA
1 ACA
16618381 CGAGATGTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.46
20 20 0.54
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:16618490 original size:24 final size:23
Alignment explanation
Indices: 16618434--16618599 Score: 235
Period size: 23 Copynumber: 7.0 Consensus size: 23
16618424 GAGGAAGTGA
16618434 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
16618457 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
16618480 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
16618504 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
16618528 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
16618551 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
16618575 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
16618599 A
1 A
16618600 TGATAAAGCA
Statistics
Matches: 130, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
23 63 0.48
24 57 0.44
25 10 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:16618550 original size:71 final size:70
Alignment explanation
Indices: 16618434--16618598 Score: 260
Period size: 71 Copynumber: 2.3 Consensus size: 70
16618424 GAGGAAGTGA
*
16618434 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCA
16618499 GTTATC
65 GTTATC
*
16618505 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTTTGCCCCAG
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAG
*
16618570 TTATT
66 TTATC
*
16618575 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
16618599 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
70 32 0.36
71 56 0.64
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (70 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAG
TTATC
Found at i:16618824 original size:31 final size:31
Alignment explanation
Indices: 16618789--16618852 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
16618779 CGTTTACCGT
*
16618789 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
16618820 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
16618851 AA
1 AA
16618853 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:16622486 original size:55 final size:55
Alignment explanation
Indices: 16622387--16622508 Score: 129
Period size: 55 Copynumber: 2.2 Consensus size: 55
16622377 TCGCTTCTCC
**
16622387 CACGCCCGTGTTAATCTAACAGGTTCGACCACGGTTACTTGGCAC-GAGCGTGTCG
1 CACGCCCGTGTTAATCTAACAGGTTCGACCACGGTTACAAGGCACAG-GCGTGTCG
* * * * * * * *
16622442 CACGCCCGTGTTAATTTGACAGGTTTGGCCATGGTTTCAAGGCACAGGTGTGTCT
1 CACGCCCGTGTTAATCTAACAGGTTCGACCACGGTTACAAGGCACAGGCGTGTCG
*
16622497 CACGCCTGTGTT
1 CACGCCCGTGTT
16622509 GTTTTGGTAG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
55 54 0.98
56 1 0.02
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (55 bp):
CACGCCCGTGTTAATCTAACAGGTTCGACCACGGTTACAAGGCACAGGCGTGTCG
Found at i:16629540 original size:2 final size:2
Alignment explanation
Indices: 16629533--16629563 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16629523 TCATGACATG
16629533 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16629564 GACTAGTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16634740 original size:100 final size:100
Alignment explanation
Indices: 16634626--16634813 Score: 349
Period size: 100 Copynumber: 1.9 Consensus size: 100
16634616 GAAGCTATCT
16634626 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
*
16634691 TGCACTTAGTACTACACATGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* *
16634726 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
16634791 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
16634814 CCTCACAATA
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:16634751 original size:51 final size:49
Alignment explanation
Indices: 16634621--16634815 Score: 282
Period size: 49 Copynumber: 3.9 Consensus size: 49
16634611 TAGCCGAAGC
* *
16634621 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * *
16634670 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAAT
* * *
16634721 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* *
16634770 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
16634816 TCACAATAGT
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 84 0.66
50 2 0.02
51 42 0.33
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:16636908 original size:20 final size:20
Alignment explanation
Indices: 16636883--16636922 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
16636873 TCAACCATTC
16636883 AATCATTCATTTCATTCAAT
1 AATCATTCATTTCATTCAAT
16636903 AATCATTCATTTCATTCAAT
1 AATCATTCATTTCATTCAAT
16636923 TTAATCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45
Consensus pattern (20 bp):
AATCATTCATTTCATTCAAT
Found at i:16639376 original size:46 final size:46
Alignment explanation
Indices: 16639323--16639498 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
16639313 TATTTGGGCA
16639323 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
16639369 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
16639416 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
16639462 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16639499 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:16639478 original size:93 final size:93
Alignment explanation
Indices: 16639319--16639490 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
16639309 GGGATATTTG
* *
16639319 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
16639384 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
16639412 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
16639477 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
16639491 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:16642487 original size:15 final size:15
Alignment explanation
Indices: 16642448--16642527 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
16642438 GTATCTTGGG
*
16642448 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
16642463 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
16642478 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
16642493 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
16642508 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
16642522 TTTCTT
1 TTTCTT
16642528 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:16642517 original size:30 final size:30
Alignment explanation
Indices: 16642439--16642526 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
16642429 CATAGTATCG
* * *
16642439 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
16642469 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
16642499 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
16642527 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:16650207 original size:27 final size:27
Alignment explanation
Indices: 16650173--16650329 Score: 154
Period size: 27 Copynumber: 5.8 Consensus size: 27
16650163 TGGATAAGTT
16650173 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
** * *
16650200 GTAGAATTACTAAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
** *
16650227 GTAGAATTATTGAAATACCCCTAT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
* * *
16650253 GATAGAATTACCAAAATACCCTTGTAGG
1 G-TAGAATTACCGAAATACCCCTGTAAG
* *
16650281 GTAGAAATACTGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
* * **
16650308 GTAGCACTACCGATTTACCCCT
1 GTAGAATTACCGAAATACCCCT
16650330 AGAGGGTAAA
Statistics
Matches: 103, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
26 2 0.02
27 99 0.96
28 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:16650327 original size:81 final size:81
Alignment explanation
Indices: 16650174--16650330 Score: 197
Period size: 81 Copynumber: 1.9 Consensus size: 81
16650164 GGATAAGTTG
* * * * * **
16650174 TAGAATTACCGAAATACCCCTGTAAGGTAGAATTACTAAAATACCCTTGTAGGGTAGAATTATTG
1 TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACTAAAATACCCCTGTAAGGTAGAACTACCG
16650239 AAATACCCCTATAGGA
66 AAATACCCCTATAGGA
* * * *
16650255 TAGAATTACCAAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAAGGTAGCACTACCG
1 TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACTAAAATACCCCTGTAAGGTAGAACTACCG
**
16650320 ATTTACCCCTA
66 AAATACCCCTA
16650331 GAGGGTAAAA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 63 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (81 bp):
TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACTAAAATACCCCTGTAAGGTAGAACTACCG
AAATACCCCTATAGGA
Found at i:16650337 original size:54 final size:54
Alignment explanation
Indices: 16650173--16650311 Score: 217
Period size: 54 Copynumber: 2.6 Consensus size: 54
16650163 TGGATAAGTT
* *
16650173 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACTAAAATACCCTTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCTTGTAGG
* *
16650227 GTAGAATTATTGAAATACCCCTAT-AGGATAGAATTACCAAAATACCCTTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAAGG-TAGAATTACCAAAATACCCTTGTAGG
*
16650281 GTAGAAATACTGAAATACCCCTGTAAGGTAG
1 GTAGAATTACTGAAATACCCCTGTAAGGTAG
16650312 CACTACCGAT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
53 3 0.04
54 70 0.92
55 3 0.04
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (54 bp):
GTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCTTGTAGG
Found at i:16651010 original size:27 final size:26
Alignment explanation
Indices: 16650966--16651017 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
16650956 CTCACTACAA
*
16650966 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
16650993 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
16651018 GCTGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:16651077 original size:29 final size:30
Alignment explanation
Indices: 16651033--16651089 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
16651023 CTCGCTGCAA
* *
16651033 TCTGTTGGCTTCGCCAC-ATATATATATGT
1 TCTGTTGGCCTAGCCACAATATATATATGT
*
16651062 TCTGTTGGCCTAGCCACAATATCTATAT
1 TCTGTTGGCCTAGCCACAATATATATAT
16651090 CTGGTGACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (30 bp):
TCTGTTGGCCTAGCCACAATATATATATGT
Found at i:16657777 original size:26 final size:27
Alignment explanation
Indices: 16657720--16657856 Score: 159
Period size: 27 Copynumber: 5.1 Consensus size: 27
16657710 TGGATAAGTT
*
16657720 GTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
16657747 GTAGAATTATTGAAATA-CCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
16657773 ATAGAATTACTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
16657800 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * ** *
16657827 GTAGCACTACCGATTTACCCCTGAAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
16657854 GTA
1 GTA
16657857 AAATGACTAT
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 24 0.25
27 72 0.75
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:16657798 original size:53 final size:54
Alignment explanation
Indices: 16657721--16657826 Score: 153
Period size: 53 Copynumber: 2.0 Consensus size: 54
16657711 GGATAAGTTG
* **
16657721 TAGAATTATCGAAATACCCCTGTAGGGTAGAATTATTGAAATA-CCCTGTAGGA
1 TAGAATTATCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGA
*
16657774 TAGAATTA-CTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGG
1 TAGAATTATC-GAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGG
16657827 GTAGCACTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
52 1 0.02
53 37 0.79
54 9 0.19
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (54 bp):
TAGAATTATCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGA
Found at i:16657855 original size:54 final size:53
Alignment explanation
Indices: 16657721--16657860 Score: 147
Period size: 53 Copynumber: 2.6 Consensus size: 53
16657711 GGATAAGTTG
* * * **
16657721 TAGAATTATCGAAATACCCCTGTAGGGTAGAATTATTGAAATACCCTGTAGGA
1 TAGAACTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTGTAGGA
* * * *
16657774 TAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGG
1 TAGAACTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATA-CCCTGTAGGA
* ** *
16657828 TAGCACTACCGATTTACCCCTGAAGGGTA-AAAT
1 TAGAACTACCGAAATACCCCTGTAGGGTAGAAAT
16657861 GACTATTTTG
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 41 0.57
54 31 0.43
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (53 bp):
TAGAACTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTGTAGGA
Found at i:16658530 original size:27 final size:26
Alignment explanation
Indices: 16658486--16658537 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
16658476 CTCGCTGCAA
*
16658486 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
16658513 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
16658538 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:16658605 original size:26 final size:27
Alignment explanation
Indices: 16658576--16658635 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
16658566 CCACATATAT
*
16658576 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
16658602 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
16658629 ATATCTG
1 ATATCTG
16658636 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:16662635 original size:20 final size:20
Alignment explanation
Indices: 16662610--16662647 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
16662600 AACCATTCAA
16662610 TCATTCATTTCATTCAATAG
1 TCATTCATTTCATTCAATAG
16662630 TCATTCATTTCATTCAAT
1 TCATTCATTTCATTCAAT
16662648 TTAATCCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.03, T:0.47
Consensus pattern (20 bp):
TCATTCATTTCATTCAATAG
Found at i:16668420 original size:40 final size:40
Alignment explanation
Indices: 16668336--16668539 Score: 256
Period size: 40 Copynumber: 5.1 Consensus size: 40
16668326 TCGAATGATG
* *
16668336 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
16668376 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
16668415 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
16668455 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
16668495 ACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
16668535 TCCGG
1 TCCGG
16668540 TTAAATTCCG
Statistics
Matches: 144, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
39 37 0.26
40 99 0.69
41 8 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:16668472 original size:79 final size:79
Alignment explanation
Indices: 16668336--16668553 Score: 257
Period size: 79 Copynumber: 2.7 Consensus size: 79
16668326 TCGAATGATG
* * **
16668336 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGCATT
16668400 TGTGCGAGTTACTA-A
64 TGTGCGAGTTACTATA
* *
16668415 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGT-CCGAAGGCATT
16668479 TGTGCGAGTTACTATA
64 TGTGCGAGTTACTATA
* * * *
16668495 ACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTT-AAGTCCGAAGG
16668554 TATGTGATTC
Statistics
Matches: 120, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
78 1 0.01
79 73 0.61
80 46 0.38
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCGAAGGCATTTG
TGCGAGTTACTATA
Found at i:16676606 original size:40 final size:40
Alignment explanation
Indices: 16676522--16676725 Score: 256
Period size: 40 Copynumber: 5.1 Consensus size: 40
16676512 TCGAATGATG
* *
16676522 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
16676562 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
16676601 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
16676641 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
16676681 ACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
16676721 TCCGG
1 TCCGG
16676726 TTAAATTCCG
Statistics
Matches: 144, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
39 37 0.26
40 99 0.69
41 8 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:16676658 original size:79 final size:79
Alignment explanation
Indices: 16676522--16676739 Score: 257
Period size: 79 Copynumber: 2.7 Consensus size: 79
16676512 TCGAATGATG
* * **
16676522 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGCATT
16676586 TGTGCGAGTTACTA-A
64 TGTGCGAGTTACTATA
* *
16676601 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGT-CCGAAGGCATT
16676665 TGTGCGAGTTACTATA
64 TGTGCGAGTTACTATA
* * * *
16676681 ACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTT-AAGTCCGAAGG
16676740 TATGTGATTC
Statistics
Matches: 120, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
78 1 0.01
79 73 0.61
80 46 0.38
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCGAAGGCATTTG
TGCGAGTTACTATA
Found at i:16686731 original size:41 final size:41
Alignment explanation
Indices: 16686686--16686803 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
16686676 TGAAAGATAA
16686686 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
16686727 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
16686757 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
16686798 ATGTAG
1 ATGTAG
16686804 ACGAGAGCTA
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:16686742 original size:71 final size:71
Alignment explanation
Indices: 16686654--16686815 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
16686644 GAGATGTATC
16686654 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
16686719 AGGACA
66 AGGACA
16686725 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
16686790 AGGACA
66 AGGACA
16686796 CCATGTAGAC--GAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
16686816 AGACAAATCG
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
69 10 0.11
71 81 0.89
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:16694300 original size:71 final size:71
Alignment explanation
Indices: 16694212--16694350 Score: 278
Period size: 71 Copynumber: 2.0 Consensus size: 71
16694202 GAGATGTATC
16694212 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
16694277 AGGACA
66 AGGACA
16694283 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
16694348 AGG
66 AGG
16694351 TGTAACACCC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:16696657 original size:40 final size:39
Alignment explanation
Indices: 16696508--16696797 Score: 476
Period size: 39 Copynumber: 7.6 Consensus size: 39
16696498 AACATTGGAA
16696508 ATATATCCGGGCTAAGACCGAAGG-ATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCGAAGGCATTCGTGCGAGTTG
16696546 ATATATCCGGGCTAAGACCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCGAAGGCATTCGTGCGAGTTG
16696585 ATATATCCGGGCTAAGACCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCGAAGGCATTCGTGCGAGTTG
16696624 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTTG
16696664 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTTG
16696704 A-ATAT-CGGG-TAAGA-CG-A---ATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCGAAGGCATTCGTGCGAGTTG
16696735 AT-TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTTG
16696774 ATATATCCGGGCTAAG-CCGAAGGC
1 ATATATCCGGGCTAAGACCGAAGGC
16696798 CTTTGTGCAA
Statistics
Matches: 240, Mismatches: 0, Indels: 24
0.91 0.00 0.09
Matches are distributed among these distances:
31 18 0.08
32 4 0.02
33 5 0.02
34 1 0.00
35 4 0.02
36 1 0.00
37 5 0.02
38 36 0.15
39 90 0.38
40 76 0.32
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (39 bp):
ATATATCCGGGCTAAGACCGAAGGCATTCGTGCGAGTTG
Found at i:16705097 original size:40 final size:40
Alignment explanation
Indices: 16704768--16705073 Score: 612
Period size: 40 Copynumber: 7.7 Consensus size: 40
16704758 AACATTGGAA
16704768 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
16704808 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
16704848 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
16704888 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
16704928 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
16704968 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
16705008 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
16705048 ATATATCCGGGCTAAGACCCGAAGGC
1 ATATATCCGGGCTAAGACCCGAAGGC
16705074 CTTTGTGCAA
Statistics
Matches: 266, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 266 1.00
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:16708501 original size:51 final size:52
Alignment explanation
Indices: 16708415--16708522 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 52
16708405 TTTTCATTTT
* *
16708415 CATTTTCAATTTGGAGAAAACCACATTCATGTCCAAAT-AATTCCATTTCTC
1 CATTTTCAATTTAGAGAAAACCACAATCATGTCCAAATGAATTCCATTTCTC
* ** * ** *
16708466 CATTTTCATTTTAGAGAAAACCTTAATCATTTCCAAATGTTTTCTATTTCTC
1 CATTTTCAATTTAGAGAAAACCACAATCATGTCCAAATGAATTCCATTTCTC
16708518 CATTT
1 CATTT
16708523 CATCATTTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
51 32 0.68
52 15 0.32
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (52 bp):
CATTTTCAATTTAGAGAAAACCACAATCATGTCCAAATGAATTCCATTTCTC
Found at i:16712039 original size:26 final size:26
Alignment explanation
Indices: 16712010--16712117 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
16712000 TGGTACAAAT
*
16712010 TGATAATGGGTTAGGTAAACGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
16712036 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16712062 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16712088 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16712114 TGAT
1 TGAT
16712118 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16713765 original size:27 final size:27
Alignment explanation
Indices: 16713725--16713865 Score: 155
Period size: 27 Copynumber: 5.2 Consensus size: 27
16713715 AGGAAGCGTC
* *
16713725 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATTTGAT
*
16713752 CTGGTGGCTCTGCCA-TATATATTTG-T
1 CTGGTGGCTCTGCCACAAT-TATTTGAT
* *
16713778 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATTTGAT
*
16713806 CTGGTGGCTCTGCCAC-ATATATTTGTT
1 CTGGTGGCTCTGCCACAAT-TATTTGAT
*
16713833 CTGATGGCTCTGCCACAA-TATTTGTAT
1 CTGGTGGCTCTGCCACAATTATTTG-AT
16713860 CTGGTG
1 CTGGTG
16713866 ACTTCGTCAC
Statistics
Matches: 95, Mismatches: 12, Indels: 14
0.79 0.10 0.12
Matches are distributed among these distances:
26 11 0.12
27 80 0.84
28 4 0.04
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATTTGAT
Found at i:16713804 original size:54 final size:54
Alignment explanation
Indices: 16713722--16713865 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
16713712 TGGAGGAAGC
*
16713722 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATATTT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATTT
16713776 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATTT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATTT
* * * *
16713830 GTTCTGATGGCTCTGCCACAA-TATTTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
16713866 ACTTCGTCAC
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 79 0.94
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATTT
Found at i:16713877 original size:81 final size:80
Alignment explanation
Indices: 16713725--16713883 Score: 189
Period size: 81 Copynumber: 2.0 Consensus size: 80
16713715 AGGAAGCGTC
* * *
16713725 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATATTTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGATGGCTCTGCCACATATATTTGTCCTGGTGACTAT
16713790 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * * *
16713806 CTGGTGGCTCTGCCAC-ATATATTTGTTCTGATGGCTCTGCCACA-ATATTTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGATGGCTCTGCCACATATATTTGT-CCTGGTGACT
*
16713869 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
16713884 GCAGCCTCGC
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
80 17 0.25
81 50 0.75
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGATGGCTCTGCCACATATATTTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:16720886 original size:93 final size:93
Alignment explanation
Indices: 16720774--16720944 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
16720764 GCCCCTAAGT
*
16720774 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
16720838 ATGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
16720867 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16720932 CGAGTTCGGATGC
66 CGAGTTCGGATGC
16720945 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:16720940 original size:46 final size:47
Alignment explanation
Indices: 16720769--16720941 Score: 205
Period size: 46 Copynumber: 3.7 Consensus size: 47
16720759 AACCCGCCCC
* *
16720769 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
* * *
16720815 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCATCCA
* *
16720863 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
16720908 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16720942 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 58 0.55
47 30 0.28
48 3 0.03
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
Found at i:16724426 original size:51 final size:49
Alignment explanation
Indices: 16724303--16724490 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
16724293 TGAGGTCACG
*
16724303 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGTA
* * * * *
16724352 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT-GGTCGTA
* * * *
16724403 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGTA
*
16724452 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
16724491 GCTTCGGCTA
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 75 0.63
50 4 0.03
51 40 0.34
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGTA
Found at i:16724475 original size:100 final size:100
Alignment explanation
Indices: 16724302--16724496 Score: 345
Period size: 100 Copynumber: 1.9 Consensus size: 100
16724292 GTGAGGTCAC
*
16724302 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGTATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
*
16724367 GCAGGCTACTATGCGTACCTGATAACTTCGATCAT
66 GCAGGCTACTATGCGTACCAGATAACTTCGATCAT
* *
16724402 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
*
16724467 GCAGGCTACTATGCGTACCAGATAGCTTCG
66 GCAGGCTACTATGCGTACCAGATAACTTCG
16724497 GCTACAAGTG
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 90 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
GCAGGCTACTATGCGTACCAGATAACTTCGATCAT
Found at i:16727705 original size:21 final size:22
Alignment explanation
Indices: 16727665--16727705 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
16727655 ATTTATCACA
* *
16727665 AAATAATATCTTTTTTAAAATG
1 AAATAATATATTTTTAAAAATG
16727687 AAATAA-ATATTTTTAAAAA
1 AAATAATATATTTTTAAAAA
16727706 ATTACTCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
AAATAATATATTTTTAAAAATG
Found at i:16728450 original size:18 final size:18
Alignment explanation
Indices: 16728427--16728467 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
16728417 ATCTTCATGC
16728427 TCTCTAT-TCTTGCTACTT
1 TCTCTATCTC-TGCTACTT
*
16728445 TCTCTATCTCTGCTTCTT
1 TCTCTATCTCTGCTACTT
16728463 TCTCT
1 TCTCT
16728468 TCCATTCCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.07, C:0.32, G:0.05, T:0.56
Consensus pattern (18 bp):
TCTCTATCTCTGCTACTT
Found at i:16733629 original size:29 final size:29
Alignment explanation
Indices: 16733587--16733643 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
16733577 TAGTTTTCAA
*
16733587 AAAATATGAGAGAGTTCAAGAAAATTTTT
1 AAAATATGAGAGAGATCAAGAAAATTTTT
16733616 AAAATATGAGAGAGATCAAGAAAATTTT
1 AAAATATGAGAGAGATCAAGAAAATTTT
16733644 AAGTCTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.28
Consensus pattern (29 bp):
AAAATATGAGAGAGATCAAGAAAATTTTT
Found at i:16735355 original size:20 final size:20
Alignment explanation
Indices: 16735308--16735347 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
16735298 ATTTTTTCTG
16735308 AGGAAAAAGCTGAAAATCAA
1 AGGAAAAAGCTGAAAATCAA
*
16735328 AGGAAAAAGCTTAAAATCAA
1 AGGAAAAAGCTGAAAATCAA
16735348 GAGAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.60, C:0.10, G:0.17, T:0.12
Consensus pattern (20 bp):
AGGAAAAAGCTGAAAATCAA
Found at i:16735355 original size:21 final size:20
Alignment explanation
Indices: 16735311--16735356 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
16735301 TTTTCTGAGG
*
16735311 AAAAAGCTGAAAATCAAAGG
1 AAAAAGCTGAAAATCAAAGA
*
16735331 AAAAAGCTTAAAATCAAGAGA
1 AAAAAGCTGAAAATCAA-AGA
16735352 AAAAA
1 AAAAA
16735357 TCGGATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.65, C:0.09, G:0.15, T:0.11
Consensus pattern (20 bp):
AAAAAGCTGAAAATCAAAGA
Found at i:16740225 original size:27 final size:27
Alignment explanation
Indices: 16740177--16740390 Score: 235
Period size: 27 Copynumber: 7.9 Consensus size: 27
16740167 GCAAGGCTGC
* *
16740177 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
16740204 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
16740230 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
16740257 CAGATAATTATGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
16740284 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
16740311 CAGATAATTGTTGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
16740338 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
16740365 CAGATATTTGTGGCATAGCCACCAGA
1 CAGATA-TTGTGGCAGAGCCACCAGA
16740391 ACACTTCCTC
Statistics
Matches: 160, Mismatches: 15, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
26 12 0.08
27 142 0.89
28 6 0.04
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:16740271 original size:54 final size:54
Alignment explanation
Indices: 16740195--16740393 Score: 328
Period size: 54 Copynumber: 3.7 Consensus size: 54
16740185 GTGACGAAGT
*
16740195 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
16740249 CACCAGATCAGATAATTATGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
16740303 CACCAGATCAGATAATTGTTGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
16740357 CACCAGATCAGATATTTGTGGCATAGCCACCAGAACA
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACA
16740394 CTTCCTCCAT
Statistics
Matches: 136, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
53 5 0.04
54 131 0.96
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:16752044 original size:46 final size:45
Alignment explanation
Indices: 16751901--16752108 Score: 160
Period size: 46 Copynumber: 4.5 Consensus size: 45
16751891 ATTGTGAGCT
* *
16751901 AGTGTAAGACATGTCTGGGACATGCATCGT-TC-ACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGTCTCGAGA-TGT-A-AGCC
* * * *
16751947 AGTGTAGGACCATGTCTGGGACATGGCATCAG-CATTGAGACG--AGACT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC-GTC-TCGAGATGTAAG-CC
16751994 AGTGTAAGACATGTCTGGGACATGCATCTGTCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GTCTCGAGATGTAAGCC
* * * * * *
16752040 AGTGTTAGACATATCTGGGACATGCGTCGACTACGAG-T-TGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGTCT-CGAGATGTAAGCC
16752084 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
16752109 GTATCGTTAT
Statistics
Matches: 131, Mismatches: 19, Indels: 25
0.75 0.11 0.14
Matches are distributed among these distances:
44 12 0.09
45 30 0.23
46 55 0.42
47 25 0.19
48 5 0.04
49 1 0.01
50 1 0.01
51 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGTCTCGAGATGTAAGCC
Found at i:16754097 original size:13 final size:13
Alignment explanation
Indices: 16754079--16754105 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16754069 ATACTTGATC
16754079 TATGTCATTTGGT
1 TATGTCATTTGGT
16754092 TATGTCATTTGGT
1 TATGTCATTTGGT
16754105 T
1 T
16754106 CTATGTTGAC
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:0.15, C:0.07, G:0.22, T:0.56
Consensus pattern (13 bp):
TATGTCATTTGGT
Found at i:16765866 original size:24 final size:24
Alignment explanation
Indices: 16765835--16765910 Score: 125
Period size: 24 Copynumber: 3.2 Consensus size: 24
16765825 CGAGTATAAT
16765835 AATATTTTTAAATTTCTTTCAAAA
1 AATATTTTTAAATTTCTTTCAAAA
16765859 AATATTTTTAAATTTCTTTCAAAA
1 AATATTTTTAAATTTCTTTCAAAA
** *
16765883 AATATTTTTAAATAACTTTAAAAA
1 AATATTTTTAAATTTCTTTCAAAA
16765907 AATA
1 AATA
16765911 AAATTTTTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (24 bp):
AATATTTTTAAATTTCTTTCAAAA
Found at i:16781891 original size:89 final size:89
Alignment explanation
Indices: 16781778--16781953 Score: 307
Period size: 89 Copynumber: 2.0 Consensus size: 89
16781768 CGGTATATAA
* * *
16781778 TGCGGACACAAAAGTAGCTTTAGGTGAGCATCCTAATATAAGCTCTTACAGGTTTCCTGACATGG
1 TGCGGACACAAAAGCAGCTCTAGGTGAGCATCCTAATATAAGCTCTTACAGGCTTCCTGACATGG
16781843 CTCGCTTGAACTCCCTGTTATGCT
66 CTCGCTTGAACTCCCTGTTATGCT
* *
16781867 TGCGGACACAAATGCAGCTCTAGGTGAGCATCCTAATATAAGCTCTTATAGGCTTCCTGACATGG
1 TGCGGACACAAAAGCAGCTCTAGGTGAGCATCCTAATATAAGCTCTTACAGGCTTCCTGACATGG
16781932 CTCGCTTGAACTCCCTGTTATG
66 CTCGCTTGAACTCCCTGTTATG
16781954 TTGTTTGGTG
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 82 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (89 bp):
TGCGGACACAAAAGCAGCTCTAGGTGAGCATCCTAATATAAGCTCTTACAGGCTTCCTGACATGG
CTCGCTTGAACTCCCTGTTATGCT
Found at i:16783918 original size:27 final size:27
Alignment explanation
Indices: 16783862--16783933 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
16783852 TTCCCCATGC
*
16783862 TTAATGTCCTAATGGACTACCCCGTGT
1 TTAATGTCCTAATGGACTACCCCCTGT
* *
16783889 TTATTGTCCTAATGGACTGCCCCACT-T
1 TTAATGTCCTAATGGACTACCCC-CTGT
**
16783916 TTAATGTCCCGATGGACT
1 TTAATGTCCTAATGGACT
16783934 CTCTCTATGC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (27 bp):
TTAATGTCCTAATGGACTACCCCCTGT
Found at i:16786183 original size:22 final size:22
Alignment explanation
Indices: 16786157--16786201 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
16786147 AGATCAACAC
16786157 AAATAT-AATCACATACATATCA
1 AAATATCAATCACAT-CATATCA
*
16786179 AAATATCAATCTCATCATATCA
1 AAATATCAATCACATCATATCA
16786201 A
1 A
16786202 TCATCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATATCAATCACATCATATCA
Found at i:16795818 original size:18 final size:19
Alignment explanation
Indices: 16795784--16795819 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16795774 GAGGACACAG
16795784 GCGTGTCTGAGCCACACGA
1 GCGTGTCTGAGCCACACGA
*
16795803 GCGTGTGTGA-CCACACG
1 GCGTGTCTGAGCCACACG
16795820 GCCTACCCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.19, C:0.31, G:0.33, T:0.17
Consensus pattern (19 bp):
GCGTGTCTGAGCCACACGA
Found at i:16798092 original size:22 final size:21
Alignment explanation
Indices: 16798067--16798116 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
16798057 GGGCACACAT
*
16798067 GCCCGTGTGGCCCGAGGGACAC
1 GCCCGTGT-GACCGAGGGACAC
**
16798089 GCCCGTGTGACCTTGGGACAC
1 GCCCGTGTGACCGAGGGACAC
16798110 GCCCGTG
1 GCCCGTG
16798117 CTACAGGCCG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.12, C:0.36, G:0.38, T:0.14
Consensus pattern (21 bp):
GCCCGTGTGACCGAGGGACAC
Found at i:16809154 original size:58 final size:58
Alignment explanation
Indices: 16809087--16809204 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
16809077 GAGGGTTGCT
16809087 GAGGTTAGAAAGAAGAATGGAGGAATTTTGAACAGTTCTTGAGGAATGCAAATTAACA
1 GAGGTTAGAAAGAAGAATGGAGGAATTTTGAACAGTTCTTGAGGAATGCAAATTAACA
16809145 GAGGTTAGAAAGAAGAATGGAGGAATTTTGAACAGTTCTTGAGGAATGCAAATTAACA
1 GAGGTTAGAAAGAAGAATGGAGGAATTTTGAACAGTTCTTGAGGAATGCAAATTAACA
16809203 GA
1 GA
16809205 TGTAGGTTAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.42, C:0.07, G:0.28, T:0.24
Consensus pattern (58 bp):
GAGGTTAGAAAGAAGAATGGAGGAATTTTGAACAGTTCTTGAGGAATGCAAATTAACA
Found at i:16809248 original size:89 final size:89
Alignment explanation
Indices: 16809153--16809330 Score: 347
Period size: 89 Copynumber: 2.0 Consensus size: 89
16809143 CAGAGGTTAG
16809153 AAAGAAGAATGGAGGAATTTTGAACAGTTCTTGAGGAATGCAAATTAACAGATGTAGGTTATTGT
1 AAAGAAGAATGGAGGAATTTTGAACAGTTCTTGAGGAATGCAAATTAACAGATGTAGGTTATTGT
16809218 GGAATATGGTTCACTTAGGAATGA
66 GGAATATGGTTCACTTAGGAATGA
16809242 AAAGAAGAATGGAGGAATTTTGAACAGTTCTTGAGGAATGCAAATTAACAGATGTAGGTTATTGT
1 AAAGAAGAATGGAGGAATTTTGAACAGTTCTTGAGGAATGCAAATTAACAGATGTAGGTTATTGT
*
16809307 GGAATGTGGTTCACTTAGGAATGA
66 GGAATATGGTTCACTTAGGAATGA
16809331 GGGAACTTGC
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.37, C:0.07, G:0.28, T:0.29
Consensus pattern (89 bp):
AAAGAAGAATGGAGGAATTTTGAACAGTTCTTGAGGAATGCAAATTAACAGATGTAGGTTATTGT
GGAATATGGTTCACTTAGGAATGA
Found at i:16811315 original size:14 final size:15
Alignment explanation
Indices: 16811286--16811319 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
16811276 ATATAATATA
*
16811286 TATAAAATTGAGCTT
1 TATAAAAATGAGCTT
16811301 TATAAAAAT-AGCTT
1 TATAAAAATGAGCTT
16811315 TATAA
1 TATAA
16811320 GTCAGCCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (15 bp):
TATAAAAATGAGCTT
Found at i:16813566 original size:19 final size:20
Alignment explanation
Indices: 16813524--16813567 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
16813514 CAATTTCATT
* *
16813524 AATTTTTTAATAATTTTTAT
1 AATTTTTTAATAATTTTCAC
*
16813544 AATTTTTT-TTAATTTTCAC
1 AATTTTTTAATAATTTTCAC
16813563 AATTT
1 AATTT
16813568 ATTGCATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
AATTTTTTAATAATTTTCAC
Found at i:16816322 original size:13 final size:13
Alignment explanation
Indices: 16816304--16816330 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16816294 TAAGAGGATC
16816304 TTAGAGCATCACA
1 TTAGAGCATCACA
16816317 TTAGAGCATCACA
1 TTAGAGCATCACA
16816330 T
1 T
16816331 GTAGTAACAT
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:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (13 bp):
TTAGAGCATCACA
Found at i:16820658 original size:23 final size:23
Alignment explanation
Indices: 16820631--16820684 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
16820621 GATGTTATTG
* *
16820631 TTTGTTGTTGTTTATTTCTAGCT
1 TTTGTTGCTGTTTATCTCTAGCT
16820654 TTTGTTGCTGTTTATCTCTAGCT
1 TTTGTTGCTGTTTATCTCTAGCT
16820677 TTTGTTGC
1 TTTGTTGC
16820685 CCACTTTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.07, C:0.13, G:0.19, T:0.61
Consensus pattern (23 bp):
TTTGTTGCTGTTTATCTCTAGCT
Found at i:16823477 original size:119 final size:119
Alignment explanation
Indices: 16823266--16823504 Score: 406
Period size: 119 Copynumber: 2.0 Consensus size: 119
16823256 TTTGATATAT
* *** *
16823266 AAGAACATGAAAGCCAAATGTTTACATAAAAAACTAAAATTTAAATTTCAATAAATAAATAGAAA
1 AAGAACATGAAAACCAAATGTTTACATAAAAAACTAAAACAAAAATTTAAATAAATAAATAGAAA
* * *
16823331 CACTGAGTAAAGTAGGAGCAGCAGTCATATTTAAAGTAAAAACTGATTATGAAG
66 CACTAACTAAAGTAGGAGCAGCAGTCATATTTAAAGTAAAAACTGATTATAAAG
16823385 AAGAACATGAAAACCAAATGTTTACATAAAAAACTAAAACAAAAATTTAAATAAATAAATAGAAA
1 AAGAACATGAAAACCAAATGTTTACATAAAAAACTAAAACAAAAATTTAAATAAATAAATAGAAA
16823450 CACTAACTAAAGTAGGAGCAGCAGTCATATTTAAAGTAAAAACTGATTATAAAG
66 CACTAACTAAAGTAGGAGCAGCAGTCATATTTAAAGTAAAAACTGATTATAAAG
16823504 A
1 A
16823505 GAAGAAAAAT
Statistics
Matches: 112, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
119 112 1.00
ACGTcount: A:0.54, C:0.10, G:0.13, T:0.23
Consensus pattern (119 bp):
AAGAACATGAAAACCAAATGTTTACATAAAAAACTAAAACAAAAATTTAAATAAATAAATAGAAA
CACTAACTAAAGTAGGAGCAGCAGTCATATTTAAAGTAAAAACTGATTATAAAG
Found at i:16828690 original size:12 final size:12
Alignment explanation
Indices: 16828673--16828697 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16828663 TTTTTTGAAT
16828673 AATCTCATTATA
1 AATCTCATTATA
16828685 AATCTCATTATA
1 AATCTCATTATA
16828697 A
1 A
16828698 GTTCTAATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (12 bp):
AATCTCATTATA
Found at i:16832239 original size:30 final size:30
Alignment explanation
Indices: 16832205--16832422 Score: 318
Period size: 30 Copynumber: 7.4 Consensus size: 30
16832195 GGCCGTGAGA
* * *
16832205 GGAGGCCGTGTGTGGCACATGACCGTGTGG
1 GGAGGCCGTGTGTGGCACATGGCCATTTGG
16832235 GGAGGCC--GTGTGGCACATGGCCATTTGG
1 GGAGGCCGTGTGTGGCACATGGCCATTTGG
16832263 GGAGGCCGTGTGTGGCACATGGCCATTTGG
1 GGAGGCCGTGTGTGGCACATGGCCATTTGG
* *
16832293 GGAGGCCGTGTGTGGCACATTGCCGTTTGG
1 GGAGGCCGTGTGTGGCACATGGCCATTTGG
* *
16832323 GGAGGCC--GTATGGCACGTGGCCATTTGG
1 GGAGGCCGTGTGTGGCACATGGCCATTTGG
16832351 GGAGGCCGTGTGTGGCACATGGCCATTTGG
1 GGAGGCCGTGTGTGGCACATGGCCATTTGG
* * *
16832381 GGAGGACGTGTGTGGCACATTGCCGTTTGG
1 GGAGGCCGTGTGTGGCACATGGCCATTTGG
16832411 GGAGGCCGTGTG
1 GGAGGCCGTGTG
16832423 ATTCACAATT
Statistics
Matches: 169, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
28 49 0.29
30 120 0.71
ACGTcount: A:0.13, C:0.20, G:0.44, T:0.23
Consensus pattern (30 bp):
GGAGGCCGTGTGTGGCACATGGCCATTTGG
Found at i:16832295 original size:58 final size:59
Alignment explanation
Indices: 16832205--16832422 Score: 300
Period size: 58 Copynumber: 3.7 Consensus size: 59
16832195 GGCCGTGAGA
* * *
16832205 GGAGGCCGTGTGTGGCACATGACCGTGTGGGGAGGCC-GTGTGGCACATGGCCATTTGG
1 GGAGGCCGTGTGTGGCACATGGCCATTTGGGGAGGCCGGTGTGGCACATGGCCATTTGG
* *
16832263 GGAGGCCGTGTGTGGCACATGGCCATTTGGGGAGGCCGTGTGTGGCACATTGCCGTTTGG
1 GGAGGCCGTGTGTGGCACATGGCCATTTGGGGAGGCCG-GTGTGGCACATGGCCATTTGG
* *
16832323 GGAGGCC--GTATGGCACGTGGCCATTTGGGGAGGCCGTGTGTGGCACATGGCCATTTGG
1 GGAGGCCGTGTGTGGCACATGGCCATTTGGGGAGGCCG-GTGTGGCACATGGCCATTTGG
* * *
16832381 GGAGGACGTGTGTGGCACATTGCCGTTTGGGGAGGCC-GTGTG
1 GGAGGCCGTGTGTGGCACATGGCCATTTGGGGAGGCCGGTGTG
16832423 ATTCACAATT
Statistics
Matches: 142, Mismatches: 14, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
58 92 0.65
60 50 0.35
ACGTcount: A:0.13, C:0.20, G:0.44, T:0.23
Consensus pattern (59 bp):
GGAGGCCGTGTGTGGCACATGGCCATTTGGGGAGGCCGGTGTGGCACATGGCCATTTGG
Found at i:16832354 original size:88 final size:88
Alignment explanation
Indices: 16832205--16832419 Score: 378
Period size: 88 Copynumber: 2.4 Consensus size: 88
16832195 GGCCGTGAGA
* *
16832205 GGAGGCCGTGTGTGGCACA-TGACCGTGTGGGGAGGCCGTGTGGCACATGGCCATTTGGGGAGGC
1 GGAGGCCGTGTGTGGCACATTG-CCGTTTGGGGAGGCCGTATGGCACATGGCCATTTGGGGAGGC
16832269 CGTGTGTGGCACATGGCCATTTGG
65 CGTGTGTGGCACATGGCCATTTGG
*
16832293 GGAGGCCGTGTGTGGCACATTGCCGTTTGGGGAGGCCGTATGGCACGTGGCCATTTGGGGAGGCC
1 GGAGGCCGTGTGTGGCACATTGCCGTTTGGGGAGGCCGTATGGCACATGGCCATTTGGGGAGGCC
16832358 GTGTGTGGCACATGGCCATTTGG
66 GTGTGTGGCACATGGCCATTTGG
*
16832381 GGAGGACGTGTGTGGCACATTGCCGTTTGGGGAGGCCGT
1 GGAGGCCGTGTGTGGCACATTGCCGTTTGGGGAGGCCGT
16832420 GTGATTCACA
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
88 120 0.98
89 2 0.02
ACGTcount: A:0.13, C:0.20, G:0.44, T:0.23
Consensus pattern (88 bp):
GGAGGCCGTGTGTGGCACATTGCCGTTTGGGGAGGCCGTATGGCACATGGCCATTTGGGGAGGCC
GTGTGTGGCACATGGCCATTTGG
Found at i:16849845 original size:28 final size:27
Alignment explanation
Indices: 16849782--16849851 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
16849772 ATAGTGAGTC
*
16849782 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
16849809 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
16849837 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16849852 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:16858848 original size:139 final size:139
Alignment explanation
Indices: 16858598--16858879 Score: 564
Period size: 139 Copynumber: 2.0 Consensus size: 139
16858588 ATACATAAGG
16858598 GATCATCTTAGCCAAATACCGGAAACTCATTACTCGACTGAGCGAATATTATTCGAAGGGAATCA
1 GATCATCTTAGCCAAATACCGGAAACTCATTACTCGACTGAGCGAATATTATTCGAAGGGAATCA
16858663 ACTAATTCAAGCACATACGAACATACCTCATTGCTGGAATTTTTCAAGCGTACTAACTGAAAATT
66 ACTAATTCAAGCACATACGAACATACCTCATTGCTGGAATTTTTCAAGCGTACTAACTGAAAATT
16858728 TTACAGCAA
131 TTACAGCAA
16858737 GATCATCTTAGCCAAATACCGGAAACTCATTACTCGACTGAGCGAATATTATTCGAAGGGAATCA
1 GATCATCTTAGCCAAATACCGGAAACTCATTACTCGACTGAGCGAATATTATTCGAAGGGAATCA
16858802 ACTAATTCAAGCACATACGAACATACCTCATTGCTGGAATTTTTCAAGCGTACTAACTGAAAATT
66 ACTAATTCAAGCACATACGAACATACCTCATTGCTGGAATTTTTCAAGCGTACTAACTGAAAATT
16858867 TTACAGCAA
131 TTACAGCAA
16858876 GATC
1 GATC
16858880 GCTCATTCTC
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 143 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.27
Consensus pattern (139 bp):
GATCATCTTAGCCAAATACCGGAAACTCATTACTCGACTGAGCGAATATTATTCGAAGGGAATCA
ACTAATTCAAGCACATACGAACATACCTCATTGCTGGAATTTTTCAAGCGTACTAACTGAAAATT
TTACAGCAA
Found at i:16859117 original size:40 final size:39
Alignment explanation
Indices: 16858900--16859117 Score: 145
Period size: 40 Copynumber: 5.5 Consensus size: 39
16858890 GAATCACGTA
* * *** *
16858900 CCTTCGGAACTTA-ACCGGATATAACGACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA-G
** * * *
16858939 CCTTCGGGACGAAGCCCGGTTATAGTGACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AAAG
* * * * * *
16858979 CCTTGGGGACTTAACCCGGGTTTAATAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA-G
* * *
16859019 CCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AAAG
* * * *
16859058 CCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCACAAAG
16859098 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
16859118 CATCATTCGA
Statistics
Matches: 137, Mismatches: 34, Indels: 15
0.74 0.18 0.08
Matches are distributed among these distances:
38 2 0.01
39 40 0.29
40 85 0.62
41 10 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAG
Found at i:16867028 original size:40 final size:40
Alignment explanation
Indices: 16866928--16867135 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
16866918 CGGAATTTAA
* * * * * **
16866928 CCGGATATAATGACTCGCTCAAATGCCTTCGGGACGAAGC
1 CCGGATATAATAACTAGCACAATTGCCTTCGGGTCTTAGC
* * * * * *
16866968 CTGGTTATAGTGACTCGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATAACTAGCACAATTGCCTTCGGGTCTTAGC
* ** * * *
16867008 CCGGATTTGGTAACTTGCACAAATGCCTTCAGGTCTTAGC
1 CCGGATATAATAACTAGCACAATTGCCTTCGGGTCTTAGC
* *
16867048 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATAACTAGCAC-AATTGCCTTCGGGTCTTAGC
* * *
16867088 CCAGATATAATTACTAGCACAATTGCCTTCGGGACTTAGC
1 CCGGATATAATAACTAGCACAATTGCCTTCGGGTCTTAGC
16867128 CCGGATAT
1 CCGGATAT
16867136 CATTCCAATG
Statistics
Matches: 136, Mismatches: 30, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
39 2 0.01
40 132 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATAACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:16867064 original size:80 final size:80
Alignment explanation
Indices: 16866980--16867135 Score: 206
Period size: 80 Copynumber: 1.9 Consensus size: 80
16866970 GGTTATAGTG
* * ** * *
16866980 ACTCGCAC-AATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATGCCTTCAGGTCT
1 ACTCGCACGAA-TGCCTTCGGGTCTTAACCCAGATATAATAACTAGCACAAATGCCTTCAGGACT
16867044 TAGCCCGGATATAACA
65 TAGCCCGGATATAACA
* * * *
16867060 ACTCGCACGAATGCCTTCGGGTCTTAGCCCAGATATAATTACTAGCACAATTGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGGTCTTAACCCAGATATAATAACTAGCACAAATGCCTTCAGGACTT
16867125 AGCCCGGATAT
66 AGCCCGGATAT
16867136 CATTCCAATG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
80 63 0.97
81 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGGTCTTAACCCAGATATAATAACTAGCACAAATGCCTTCAGGACTT
AGCCCGGATATAACA
Found at i:16868841 original size:6 final size:6
Alignment explanation
Indices: 16868830--16869016 Score: 163
Period size: 6 Copynumber: 30.8 Consensus size: 6
16868820 AACCAAAATG
*
16868830 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
16868878 AGTAA-C AGAATC AGAATC AAAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
16868927 AGAATC AGTAAT- AGAATC AGAATT AGAATC AGAATT AGTAA-C AGAATT
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
16868975 AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
16869017 GTGAATGCAA
Statistics
Matches: 147, Mismatches: 18, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
5 12 0.08
6 120 0.82
7 12 0.08
8 3 0.02
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:16868972 original size:85 final size:85
Alignment explanation
Indices: 16868830--16869016 Score: 322
Period size: 85 Copynumber: 2.2 Consensus size: 85
16868820 AACCAAAATG
16868830 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
16868895 CAAAATCAGAATTAGGTGAC
66 CAAAATCAGAATTAGGTGAC
* * *
16868915 AGAATCAGAATCAGAATCAGTAATAGAATCAGAATTAGAATCAGA-ATTAGTAACAGAATTAGAA
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCA-ATATTAGTAACAGAATCAGAA
*
16868979 TCAGAATCAGAATTAGGTGAC
65 TCAAAATCAGAATTAGGTGAC
16869000 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
16869017 GTGAATGCAA
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
85 96 0.99
86 1 0.01
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAAAATCAGAATTAGGTGAC
Found at i:16869204 original size:27 final size:27
Alignment explanation
Indices: 16869134--16869214 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
16869124 AGCATGGCTG
* *
16869134 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
16869160 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
*
16869187 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAATCAGATAATGTGGCAGAGCCA
16869214 C
1 C
16869215 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
25 1 0.02
26 4 0.09
27 38 0.83
28 3 0.07
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:16869420 original size:22 final size:22
Alignment explanation
Indices: 16869372--16869430 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
16869362 GTAAATACGT
*
16869372 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
16869394 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
16869416 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
16869431 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:16869557 original size:27 final size:26
Alignment explanation
Indices: 16869518--16869600 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
16869508 TCGATCGGTC
* *
16869518 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
16869544 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
16869571 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
16869598 AAC
1 AAC
16869601 GCTTCCTCCG
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 8 0.15
27 44 0.85
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:16869830 original size:27 final size:27
Alignment explanation
Indices: 16869800--16869995 Score: 232
Period size: 27 Copynumber: 7.3 Consensus size: 27
16869790 GGGGCAAAAT
* * * *
16869800 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
16869827 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
16869854 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
16869881 GATAATTCTACCCTACGAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
16869908 GATAATTCTACCCTATAAGGGTAGTTT-
1 GGTAATTCTACCCTACAAGGGTA-TTTC
* * *
16869935 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
16869962 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
16869989 AGTAATT
1 GGTAATT
16869996 TCACAATTGA
Statistics
Matches: 147, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 3 0.02
27 141 0.96
28 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:16870034 original size:27 final size:27
Alignment explanation
Indices: 16870004--16870111 Score: 139
Period size: 27 Copynumber: 4.0 Consensus size: 27
16869994 TTTCACAATT
*
16870004 GAGGGTAAAAC-AGTAATTCTGTAAATC
1 GAGGGTAAAACGA-TAATTCTATAAATC
* *
16870031 GAGGGT-AAACGATAATTTTAAAAATC
1 GAGGGTAAAACGATAATTCTATAAATC
*
16870057 GAGGGTAAAACGATAATTCTGTAAATC
1 GAGGGTAAAACGATAATTCTATAAATC
* *
16870084 GAGGATAAAACGGTAATTCTATAAATC
1 GAGGGTAAAACGATAATTCTATAAATC
16870111 G
1 G
16870112 GGAGTACTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 21 0.30
27 49 0.70
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (27 bp):
GAGGGTAAAACGATAATTCTATAAATC
Found at i:16870037 original size:53 final size:53
Alignment explanation
Indices: 16870004--16870111 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 53
16869994 TTTCACAATT
16870004 GAGGGTAAAAC-AGTAATTCTGTAAATCGAGGGTAAACGATAATTTTAAAAATC
1 GAGGGTAAAACGA-TAATTCTGTAAATCGAGGGTAAACGATAATTTTAAAAATC
* * * *
16870057 GAGGGTAAAACGATAATTCTGTAAATCGAGGATAAAACGGTAATTCTATAAATC
1 GAGGGTAAAACGATAATTCTGTAAATCGAGGGT-AAACGATAATTTTAAAAATC
16870111 G
1 G
16870112 GGAGTACTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 30 0.61
54 19 0.39
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (53 bp):
GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAACGATAATTTTAAAAATC
Found at i:16872977 original size:49 final size:49
Alignment explanation
Indices: 16872917--16873180 Score: 456
Period size: 49 Copynumber: 5.4 Consensus size: 49
16872907 TACATATATG
* * * * * *
16872917 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGGATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
16872966 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
16873015 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
16873064 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
16873113 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
16873162 TGTGATAAGGCCTAATGGC
1 TGTGATGAGGCCTAATGGC
16873181 TAATGTAAAA
Statistics
Matches: 208, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 208 1.00
ACGTcount: A:0.28, C:0.09, G:0.34, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:16873331 original size:37 final size:37
Alignment explanation
Indices: 16873281--16873365 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
16873271 GGAATATGTT
*
16873281 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
16873318 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
16873355 CCGGGTAAGAC
1 CCGGGTAAGAC
16873366 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:16875256 original size:40 final size:40
Alignment explanation
Indices: 16875174--16875258 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
16875164 GAGAATTGAG
** * * *
16875174 AGTGATGTATCCGGACTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGCCCCAAAGAGCAATCATACT
* * *
16875214 AGTGATGTATCCGGGCTAGGCCCCGAAGAGCAATCATACT
1 AGTGATGTATCCGGACTAAGCCCCAAAGAGCAATCATACT
16875254 AGTGA
1 AGTGA
16875259 CGTGTATTCG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGCCCCAAAGAGCAATCATACT
Done.