Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 71 of 310
Found at i:22655872 original size:49 final size:49
Alignment explanation
Indices: 22655800--22655897 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
22655790 GGATCTCGTC
*
22655800 AGCATATCGTCCAAACATGTGTGTAACTGACACTCTTTCATAGTCTAGA
1 AGCATATCGTCCAAACAGGTGTGTAACTGACACTCTTTCATAGTCTAGA
22655849 AGCATATCGTCCAAACAGGTGTGTAACTGACACTCTTTCATAGTCTAGA
1 AGCATATCGTCCAAACAGGTGTGTAACTGACACTCTTTCATAGTCTAGA
22655898 TCAGCAAAAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (49 bp):
AGCATATCGTCCAAACAGGTGTGTAACTGACACTCTTTCATAGTCTAGA
Found at i:22655916 original size:8 final size:8
Alignment explanation
Indices: 22655903--22655929 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
22655893 CTAGATCAGC
22655903 AAAAGCCG
1 AAAAGCCG
22655911 AAAAGCCG
1 AAAAGCCG
22655919 AAAAGCCG
1 AAAAGCCG
22655927 AAA
1 AAA
22655930 TGCCAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.22, G:0.22, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:22655938 original size:16 final size:16
Alignment explanation
Indices: 22655903--22655938 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
22655893 CTAGATCAGC
*
22655903 AAAAGCCGAAAAGCCG
1 AAAAGCCGAAAAGCCA
*
22655919 AAAAGCCGAAATGCCA
1 AAAAGCCGAAAAGCCA
22655935 AAAA
1 AAAA
22655939 ATCGGTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.22, G:0.19, T:0.03
Consensus pattern (16 bp):
AAAAGCCGAAAAGCCA
Found at i:22660695 original size:31 final size:31
Alignment explanation
Indices: 22660654--22660717 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
22660644 CCTTTTCATA
*
22660654 TTTCATATTTCATAACACTAGGCCGAAGCCT
1 TTTCAAATTTCATAACACTAGGCCGAAGCCT
** *
22660685 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTAGGCCGAAGCCT
22660716 TT
1 TT
22660718 ACTGTAAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTAGGCCGAAGCCT
Found at i:22660958 original size:24 final size:24
Alignment explanation
Indices: 22660925--22661052 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
22660915 CTGGAGGCCT
* *
22660925 AGCCTCTTTTAATAACTAGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
22660950 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
22660974 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
22660997 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
22661021 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
22661044 AGCCCTTTT
1 AGCCCTTTT
22661053 GCACTTCCTC
Statistics
Matches: 97, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
23 45 0.46
24 48 0.49
25 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:22660986 original size:23 final size:23
Alignment explanation
Indices: 22660932--22661051 Score: 195
Period size: 23 Copynumber: 5.1 Consensus size: 23
22660922 CCTAGCCTCT
* *
22660932 TTTAATAACTAGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
22660955 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
22660979 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
22661002 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
22661026 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
22661049 TTT
1 TTT
22661052 TGCACTTCCT
Statistics
Matches: 91, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
23 48 0.53
24 43 0.47
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:22661053 original size:47 final size:47
Alignment explanation
Indices: 22660932--22661053 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
22660922 CCTAGCCTCT
* * *
22660932 TTTAATAACTAGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
22660979 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
22661026 TTTAATAACTGGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTG
22661054 CACTTCCTCC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Found at i:22661124 original size:9 final size:9
Alignment explanation
Indices: 22661110--22661166 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
22661100 ATCTCATGTG
22661110 CATATCATA
1 CATATCATA
*
22661119 CATATCATGTG
1 CATATCA--TA
22661130 CATATCATA
1 CATATCATA
* *
22661139 CATGTCATGTG
1 CATATCA--TA
22661150 CATATCATA
1 CATATCATA
22661159 CATATCAT
1 CATATCAT
22661167 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:22661126 original size:20 final size:20
Alignment explanation
Indices: 22661098--22661168 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
22661088 GCATTTATGA
*
22661098 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
22661118 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
22661138 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
22661158 ACATATCATGT
1 ACATATCATGT
22661169 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:22661133 original size:11 final size:11
Alignment explanation
Indices: 22661103--22661157 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
22661093 TATGAACATC
22661103 TCATGTGCATA
1 TCATGTGCATA
*
22661114 TCA--TACATA
1 TCATGTGCATA
22661123 TCATGTGCATA
1 TCATGTGCATA
* *
22661134 TCA--TACATG
1 TCATGTGCATA
22661143 TCATGTGCATA
1 TCATGTGCATA
22661154 TCAT
1 TCAT
22661158 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:22662446 original size:27 final size:26
Alignment explanation
Indices: 22662411--22662488 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 26
22662401 GGGCATATTC
*
22662411 GTCATTTTACCATACAGGGGTATTACG
1 GTCACTTTACC-TACAGGGGTATTACG
22662438 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCACTTTA-CCTACAGGGG-TATTACG
*
22662465 GTCACTTTACCTAATAGGGGTATT
1 GTCACTTTACCT-ACAGGGGTATT
22662489 TTAGTCATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
26 4 0.09
27 38 0.84
28 3 0.07
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGTATTACG
Found at i:22662559 original size:27 final size:27
Alignment explanation
Indices: 22662529--22662580 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
22662519 GTAAATCTAC
22662529 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
22662556 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
22662581 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:22662679 original size:54 final size:54
Alignment explanation
Indices: 22662617--22662757 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 54
22662607 TTTGTAAATT
*
22662617 AGGGTATTTTTGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCA
1 AGGGTATTTTAGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCA
* * * * *
22662671 AGGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTAGTAATTTTACAAATTGA-GGGTATTTCGATAATTTCACAAACCA
** *
22662725 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 AGGGTATTTTAGTAATTTTACAAATTGAGGGTA
22662758 AAATAGTAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
53 1 0.01
54 73 0.97
55 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCA
Found at i:22662755 original size:27 final size:27
Alignment explanation
Indices: 22662537--22662811 Score: 155
Period size: 27 Copynumber: 10.1 Consensus size: 27
22662527 ACAAACCAAA
* * * *
22662537 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTATAAATCAAG
*
22662564 GGTATTTCTA-TAATTTTTAGAAAGTCAAG
1 GGTATTT-TAGTAA-TTTTATAAA-TCAAG
* * *
22662593 GGTATTTCT-GTAACTTTGTAAAT-TAG
1 GGTATTT-TAGTAATTTTATAAATCAAG
* * **
22662619 GGTATTTTTGTAATTTTACAAATTGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* * * *
22662646 GGTA-TTTCGATAATTTCACAAACCAAG
1 GGTATTTTAG-TAATTTTATAAATCAAG
* * *
22662673 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTAGTAATTTTATAAATC-AAG
* * *
22662700 GGTATTTTGGTAATTTTACAAACCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* *
22662727 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
*** *
22662754 GGTAAAATAGTAATTCTATAAATCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
**** * *
22662781 GGTAAAACAGTAATTCTATAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
22662808 GGTA
1 GGTA
22662812 AAACGGTAAT
Statistics
Matches: 203, Mismatches: 35, Indels: 20
0.79 0.14 0.08
Matches are distributed among these distances:
25 1 0.00
26 25 0.12
27 143 0.70
28 19 0.09
29 15 0.07
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTATAAATCAAG
Found at i:22662756 original size:81 final size:79
Alignment explanation
Indices: 22662506--22662757 Score: 186
Period size: 81 Copynumber: 3.1 Consensus size: 79
22662496 TTTCATCCTA
* * * * * ** *
22662506 CAAGGGTGTTTTGGTAAATCTACAAACCAAAGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAA-CTAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
22662571 CTA-TAATTTTTAGAAAGT
65 -TAGTAATTTTT--AAA-T
* ** * * ***
22662589 CAAGGGTATTTCT-GTAACTTTGTAAATTAGGGTATTTTTGTAATTTTACAAATTGAGGGTA-TT
1 CAAGGGTATTT-TGGTAAATTTACAAACTAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
* ** *
22662652 TCGATAATTTCACAAAC
65 TAG-TAATTT-TTAAAT
* *
22662669 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTA-GGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
22662734 TAGTAATTTTGTAAAT
65 TAGTAATTTT-TAAAT
*
22662750 CGAGGGTA
1 CAAGGGTA
22662758 AAATAGTAAT
Statistics
Matches: 128, Mismatches: 33, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
79 1 0.01
80 24 0.19
81 49 0.38
82 34 0.27
83 19 0.15
84 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.39
Consensus pattern (79 bp):
CAAGGGTATTTTGGTAAATTTACAAACTAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
AGTAATTTTTAAAT
Found at i:22662767 original size:54 final size:54
Alignment explanation
Indices: 22662707--22662932 Score: 211
Period size: 54 Copynumber: 4.2 Consensus size: 54
22662697 AGGGGTATTT
* **** * *
22662707 TGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAA
1 TGGTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
* * *
22662761 TAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
* ** * * *
22662815 CGGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAAGTCGAGGGTAAAA
1 TGGTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
* * ** * * * *
22662869 TGATAATTATGTAAATCAGGGGTAAAAC-GATAATTCTGTAAATCGGGGGTAAAA
1 TGGTAATTCTACAAACCAAGGGTAAAACAG-TAATTCTATAAATCGAGGGTAAAA
*
22662923 CGGTAATTCT
1 TGGTAATTCT
22662933 GTAAATCGGG
Statistics
Matches: 147, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
53 1 0.01
54 146 0.99
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (54 bp):
TGGTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
Found at i:22662794 original size:81 final size:81
Alignment explanation
Indices: 22662709--22662939 Score: 205
Period size: 81 Copynumber: 2.9 Consensus size: 81
22662699 GGGTATTTTG
* **** * * *
22662709 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
22662774 AATCAAGGGTAAAACA
66 AATCAAGGGTAAAACA
* * * * *
22662790 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
* * *
22662855 AGTCGAGGGTAAAA-T
66 AATCAAGGGTAAAACA
* ** * * ** * *
22662870 GATAATTATGTAAATCAGGGGTAAAAC-GATAATTCTGTAAATCGGGGGTAAAACGGTAATTCTG
1 G-TAATTCTACAAACCAAGGGTAAAACAG-TAATTCTGTAAATCAAGGGTAAAACAGTAATTCTA
22662934 TAAATC
64 TAAATC
22662940 GGGGGTACTT
Statistics
Matches: 124, Mismatches: 24, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
80 2 0.02
81 122 0.98
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (81 bp):
GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
AATCAAGGGTAAAACA
Found at i:22662812 original size:27 final size:27
Alignment explanation
Indices: 22662735--22662946 Score: 259
Period size: 27 Copynumber: 7.9 Consensus size: 27
22662725 AGGGTATTTT
* *
22662735 AGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
22662762 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
22662789 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
22662816 GGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
22662843 AGTAATTCTGTAAGTCGAGGGTAAAA-
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
22662869 TGATAATTATGTAAATC-AGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
*
22662897 -GATAATTCTGTAAATCGGGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
22662924 GGTAATTCTGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
22662947 CTTTGGTAAT
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
26 2 0.01
27 161 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:22662957 original size:54 final size:54
Alignment explanation
Indices: 22662735--22662939 Score: 295
Period size: 54 Copynumber: 3.8 Consensus size: 54
22662725 AGGGTATTTT
* ** *
22662735 AGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
*
22662789 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
* * * * *
22662843 AGTAATTCTGTAAGTCGAGGGTAAAATGATAATTATGTAAATCAGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
*
22662897 -GATAATTCTGTAAATCGGGGGTAAAACGGTAATTCTGTAAATC
1 AG-TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC
22662940 GGGGGTACTT
Statistics
Matches: 134, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
53 1 0.01
54 133 0.99
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.28
Consensus pattern (54 bp):
AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:22662982 original size:27 final size:27
Alignment explanation
Indices: 22662952--22663040 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
22662942 GGGTACTTTG
*
22662952 GTAATTTTACAAGTCGAAAGTATTTCA
1 GTAATTTTACAAATCGAAAGTATTTCA
**
22662979 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAAGTATTTCA
* * *
22663006 GT-ATTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-AGTATTTCA
22663032 GTAATTTTA
1 GTAATTTTA
22663041 GTAAACTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
25 2 0.04
26 20 0.37
27 32 0.59
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAAGTATTTCA
Found at i:22663024 original size:26 final size:27
Alignment explanation
Indices: 22662971--22663049 Score: 99
Period size: 26 Copynumber: 2.9 Consensus size: 27
22662961 CAAGTCGAAA
*
22662971 GTATTTCAGTAATTTTACAAA-TCGAGG
1 GTATTTCAGTAATTTTACAAACT-AAGG
22662998 GTATTTCAGT-ATTTTACAAACTAAGG
1 GTATTTCAGTAATTTTACAAACTAAGG
* *
22663024 GTATTTCGGTAATTTTAGTAAACTAA
1 GTATTTCAGTAATTTTA-CAAACTAA
22663050 AGTATTCTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
26 22 0.48
27 17 0.37
28 7 0.15
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAACTAAGG
Found at i:22664808 original size:31 final size:31
Alignment explanation
Indices: 22664770--22664848 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
22664760 CAGCACATAT
22664770 TGGGCCGAAGCCTTTACATTATTCATATCAC
1 TGGGCCGAAGCCTTTACATTATTCATATCAC
*
22664801 TGGGCCGAAGCCTTTTCATTATTCATATCAC
1 TGGGCCGAAGCCTTTACATTATTCATATCAC
22664832 TGGGCCGAAGCCTTTAC
1 TGGGCCGAAGCCTTTAC
22664849 TGTAACAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (31 bp):
TGGGCCGAAGCCTTTACATTATTCATATCAC
Found at i:22665080 original size:25 final size:26
Alignment explanation
Indices: 22665065--22665161 Score: 135
Period size: 26 Copynumber: 3.8 Consensus size: 26
22665055 CTCTTTTAAT
22665065 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTTGATA
22665091 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTTGATA
* * *
22665117 AACTGGGGC-AACGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTTGATA
* *
22665142 AACTAGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
22665162 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 30 0.46
26 35 0.54
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTTGATA
Found at i:22665225 original size:11 final size:11
Alignment explanation
Indices: 22665209--22665247 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
22665199 TATATAAATT
22665209 TATCATGTGCA
1 TATCATGTGCA
*
22665220 TATCA--TACA
1 TATCATGTGCA
22665229 TATCATGTGCA
1 TATCATGTGCA
22665240 TATCATGT
1 TATCATGT
22665248 CAAATAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:22666568 original size:12 final size:12
Alignment explanation
Indices: 22666551--22666575 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22666541 CCCTACCTAT
22666551 TAACAATATTTA
1 TAACAATATTTA
22666563 TAACAATATTTA
1 TAACAATATTTA
22666575 T
1 T
22666576 GTTATAAAAT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:22673513 original size:25 final size:25
Alignment explanation
Indices: 22673485--22673568 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 25
22673475 CTGGAGGCCT
22673485 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCCTCTTTTAATAAACTGGGGC-AA
*
22673510 AGCCAT-TTTTGATAAACTGGGGCAA
1 AGCC-TCTTTTAATAAACTGGGGCAA
* * *
22673535 AGCC-CTTTTCAGTAAACTAGGGCAT
1 AGCCTCTTTT-AATAAACTGGGGCAA
22673560 AGCC-CTTTT
1 AGCCTCTTTT
22673569 GCACTTCCTC
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
24 4 0.08
25 36 0.72
26 10 0.20
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (25 bp):
AGCCTCTTTTAATAAACTGGGGCAA
Found at i:22673632 original size:11 final size:11
Alignment explanation
Indices: 22673616--22673663 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
22673606 TATATGAATT
22673616 TATCATGTGCA
1 TATCATGTGCA
*
22673627 TATCA--TACA
1 TATCATGTGCA
22673636 TATCATGTGCA
1 TATCATGTGCA
22673647 TATCATGT-CA
1 TATCATGTGCA
*
22673657 AATCATG
1 TATCATG
22673664 CATATCAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 8 0.25
11 16 0.50
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:22689772 original size:13 final size:13
Alignment explanation
Indices: 22689756--22689798 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
22689746 TAATATATGT
22689756 AATCGAAATATCA
1 AATCGAAATATCA
22689769 AATCGAAATATCA
1 AATCGAAATATCA
*
22689782 AATCAAAATATCA
1 AATCGAAATATCA
22689795 AATC
1 AATC
22689799 CATAAAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.56, C:0.16, G:0.05, T:0.23
Consensus pattern (13 bp):
AATCGAAATATCA
Found at i:22691392 original size:5 final size:5
Alignment explanation
Indices: 22691378--22691418 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
22691368 TTATTTAAAA
22691378 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
22691419 ATACATCATT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.11
5 32 0.89
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:22692360 original size:33 final size:33
Alignment explanation
Indices: 22692313--22692385 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
22692303 TTTAAAGATA
*
22692313 AAAAATAGAGAACTTAATCAATATTTAATTTAAT
1 AAAAATAGAGAACTTAAGCAA-ATTTAATTTAAT
* * *
22692347 AAAAATA-ATAACTTAAGGAAATTTATTTTAAT
1 AAAAATAGAGAACTTAAGCAAATTTAATTTAAT
*
22692379 AAGAATA
1 AAAAATA
22692386 TATTTTATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 17 0.50
33 10 0.29
34 7 0.21
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (33 bp):
AAAAATAGAGAACTTAAGCAAATTTAATTTAAT
Found at i:22693797 original size:21 final size:21
Alignment explanation
Indices: 22693772--22693822 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
22693762 CCCGTATAGT
*
22693772 CCACACGGCCTAACCCAAAAC
1 CCACACGCCCTAACCCAAAAC
*
22693793 CCACACGCCCTAGCCCAAAAC
1 CCACACGCCCTAACCCAAAAC
22693814 CCACACGCC
1 CCACACGCC
22693823 GTGTGGTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.53, G:0.10, T:0.04
Consensus pattern (21 bp):
CCACACGCCCTAACCCAAAAC
Found at i:22695649 original size:221 final size:221
Alignment explanation
Indices: 22695261--22695702 Score: 785
Period size: 221 Copynumber: 2.0 Consensus size: 221
22695251 TTCTATGGAG
22695261 AAACCTTAAGAAAGACAAAGTCACCCATAGAGTACTCAATATCTTTTCTCTTCAGCTCTGCATAA
1 AAACCTTAAGAAAGACAAAGTCACCCATAGAGTACTCAATATCTTTTCTCTTCAGCTCTGCATAA
* * * * *
22695326 GACTTCTGTCTATCAAAAACTGCCTTCAGATTATCCATAATCATTCTAACATTATCTTTAGTCTC
66 GACTTCTGTCTATCAAAAACTACCTTCAGATGATCCATAATCATCCTAACATTATCTTCAATCTC
*
22695391 AGAAACCAACTCAGGACCCAAAACCCTACACTCACCCAACTCAATCCAACATAACGGAGTACGAC
131 AGAAACCAACTCAGGACCCAAAACCCTACACTCACCCAACTCAATCCAACATAACAGAGTACGAC
22695456 ACTTACGGCCATACAAAGCCTCATAA
196 ACTTACGGCCATACAAAGCCTCATAA
22695482 AAACCTTAAGAAAGACAAAGTCACCCATAGAGTACTCAATATCTTTTCTCTTCAGCTCTGCATAA
1 AAACCTTAAGAAAGACAAAGTCACCCATAGAGTACTCAATATCTTTTCTCTTCAGCTCTGCATAA
* *
22695547 GACTTCTGTCTATCAGAAACTACCTTCAGATGATCCATAATCATCCTAACCTTATCTTCAATCTC
66 GACTTCTGTCTATCAAAAACTACCTTCAGATGATCCATAATCATCCTAACATTATCTTCAATCTC
* *
22695612 AGAAACCAACTCAGGACCCAAAACCCTACATTCACCCAACTCAGTCCAACATAACAGAGTACGAC
131 AGAAACCAACTCAGGACCCAAAACCCTACACTCACCCAACTCAATCCAACATAACAGAGTACGAC
*
22695677 ACTTACGGTCATACAAAGCCTCATAA
196 ACTTACGGCCATACAAAGCCTCATAA
22695703 GGTGCCATTT
Statistics
Matches: 210, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
221 210 1.00
ACGTcount: A:0.36, C:0.29, G:0.10, T:0.25
Consensus pattern (221 bp):
AAACCTTAAGAAAGACAAAGTCACCCATAGAGTACTCAATATCTTTTCTCTTCAGCTCTGCATAA
GACTTCTGTCTATCAAAAACTACCTTCAGATGATCCATAATCATCCTAACATTATCTTCAATCTC
AGAAACCAACTCAGGACCCAAAACCCTACACTCACCCAACTCAATCCAACATAACAGAGTACGAC
ACTTACGGCCATACAAAGCCTCATAA
Found at i:22699554 original size:13 final size:13
Alignment explanation
Indices: 22699536--22699581 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
22699526 AATAATATTT
22699536 ATAATATAAATAC
1 ATAATATAAATAC
*
22699549 ATAATA-ATAATGAT
1 ATAATATA-AAT-AC
22699563 ATAATATAAATAC
1 ATAATATAAATAC
22699576 ATAATA
1 ATAATA
22699582 ATATAAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 1 0.04
13 16 0.57
14 10 0.36
15 1 0.04
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (13 bp):
ATAATATAAATAC
Found at i:22699555 original size:16 final size:16
Alignment explanation
Indices: 22699536--22699588 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
22699526 AATAATATTT
22699536 ATAATATAAATACATA
1 ATAATATAAATACATA
*
22699552 AT-A-AT-AAT-GAT-
1 ATAATATAAATACATA
22699563 ATAATATAAATACATA
1 ATAATATAAATACATA
22699579 ATAATATAAA
1 ATAATATAAA
22699589 AGAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
11 2 0.07
12 3 0.10
13 5 0.17
14 5 0.17
15 3 0.10
16 12 0.40
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (16 bp):
ATAATATAAATACATA
Found at i:22699594 original size:21 final size:20
Alignment explanation
Indices: 22699536--22699596 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
22699526 AATAATATTT
22699536 ATAATATAAATACATAATAATA
1 ATAATATAAA-ACA-AATAATA
* * *
22699558 ATGATATAATATAAATACATA
1 ATAATATAAAACAAATA-ATA
*
22699579 ATAATATAAAAGAAATAA
1 ATAATATAAAACAAATAA
22699597 AACATAAAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
20 5 0.16
21 19 0.59
22 8 0.25
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (20 bp):
ATAATATAAAACAAATAATA
Found at i:22699595 original size:27 final size:27
Alignment explanation
Indices: 22699538--22699603 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
22699528 TAATATTTAT
* * *
22699538 AATATAAATACATAATAATAATGATAT
1 AATATAAATACATAATAATAATAAAAA
*
22699565 AATATAAATACATAATAAT-ATAAAAG
1 AATATAAATACATAATAATAATAAAAA
22699591 AA-ATAAA-ACATAA
1 AATATAAATACATAA
22699604 AGAAAAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 6 0.17
25 5 0.14
26 6 0.17
27 19 0.53
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (27 bp):
AATATAAATACATAATAATAATAAAAA
Found at i:22709270 original size:47 final size:47
Alignment explanation
Indices: 22709201--22709295 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
22709191 AGAATAAAAT
22709201 TCACTATGTCGAAAATTTTAATCCTTACAAGAGGAATAGACTATGTC
1 TCACTATGTCGAAAATTTTAATCCTTACAAGAGGAATAGACTATGTC
22709248 TCACTATGTCGAAAATTTTAATCCTTACAAGAGGAATAGACTATGTC
1 TCACTATGTCGAAAATTTTAATCCTTACAAGAGGAATAGACTATGTC
22709295 T
1 T
22709296 ATTTATAGGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (47 bp):
TCACTATGTCGAAAATTTTAATCCTTACAAGAGGAATAGACTATGTC
Found at i:22710224 original size:25 final size:25
Alignment explanation
Indices: 22710188--22710246 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
22710178 TTTCATTTTA
22710188 TTTTGA-TTACCCAACTATTAATTT
1 TTTTGACTTACCCAACTATTAATTT
22710212 TTTTGACTTACCCAACTATTAATTT
1 TTTTGACTTACCCAACTATTAATTT
22710237 TTTTGACTTA
1 TTTTGACTTA
22710247 GTCATTAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 6 0.18
25 28 0.82
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (25 bp):
TTTTGACTTACCCAACTATTAATTT
Found at i:22718363 original size:18 final size:19
Alignment explanation
Indices: 22718324--22718365 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 19
22718314 ATGGAGGTAA
22718324 TAAAATGTCCATAATAAAAT
1 TAAAATGT-CATAATAAAAT
22718344 TAAAATGT-ATAA-AAATAT
1 TAAAATGTCATAATAAA-AT
22718362 TAAA
1 TAAA
22718366 GTAAAGCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 3 0.14
18 10 0.48
20 8 0.38
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
TAAAATGTCATAATAAAAT
Found at i:22721941 original size:5 final size:5
Alignment explanation
Indices: 22721933--22721983 Score: 88
Period size: 5 Copynumber: 10.6 Consensus size: 5
22721923 ATTTTATGTT
22721933 ATATA ATATA ATAT- A-ATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
22721981 ATA
1 ATA
22721984 ACATAATATC
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 40 0.91
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:22721953 original size:13 final size:13
Alignment explanation
Indices: 22721935--22721991 Score: 71
Period size: 13 Copynumber: 4.2 Consensus size: 13
22721925 TTTATGTTAT
22721935 ATAATATAATATA
1 ATAATATAATATA
22721948 ATAATATAATATAA
1 ATAATATAATAT-A
22721962 TATAATATAATATA
1 -ATAATATAATATA
*
22721976 AT-ATAATAACATA
1 ATAAT-ATAATATA
22721989 ATA
1 ATA
22721992 TCATTTACTT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
12 2 0.05
13 23 0.59
14 2 0.05
15 12 0.31
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATATAATATA
Found at i:22721956 original size:18 final size:18
Alignment explanation
Indices: 22721933--22721992 Score: 90
Period size: 18 Copynumber: 3.5 Consensus size: 18
22721923 ATTTTATGTT
22721933 ATATAATATAATATAATA
1 ATATAATATAATATAATA
22721951 ATATAATAT-A-AT-ATA
1 ATATAATATAATATAATA
22721966 ATATAATATAATATAATA
1 ATATAATATAATATAATA
*
22721984 ACATAATAT
1 ATATAATAT
22721993 CATTTACTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
15 12 0.32
16 3 0.08
17 3 0.08
18 20 0.53
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATAATATAATATAATA
Found at i:22723562 original size:22 final size:22
Alignment explanation
Indices: 22723535--22723580 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
22723525 GGTAAATGTG
22723535 TGAAATAATTGAAATTGTGAGA
1 TGAAATAATTGAAATTGTGAGA
22723557 TGAAATAATTGAAATTGTGAGA
1 TGAAATAATTGAAATTGTGAGA
22723579 TG
1 TG
22723581 CTATAGGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.24, T:0.33
Consensus pattern (22 bp):
TGAAATAATTGAAATTGTGAGA
Found at i:22724089 original size:48 final size:48
Alignment explanation
Indices: 22724037--22724305 Score: 199
Period size: 48 Copynumber: 5.6 Consensus size: 48
22724027 TATGTGTGCT
* *
22724037 AGTGTAAGACCATGTCTGGGACATGGCGTTAGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTAGCCATGATATGAGAGCC
* * ** * * *
22724085 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGATCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTAGCCATGATATGAGAGCC
* * * * *
22724133 AGTGTAAGACTATGT-TCGGGACATGGCATT-GACATTGATATGTGTGCT
1 AGTGTAAGACCATGTCT-GGGACATGGCATTAGCCA-TGATATGAGAGCC
* * * * * * *
22724181 AGTGTAAGACCATGTTTGGGTCATGGCATCAG-TATTA-AGAGAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATTAGCCATGATA-TG-AGAGCC
* * *
22724229 AGTGTAAGACCATGTCTGGGACATGGTATTGGCC-TCGACATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTAGCCAT-GATATG-AGAGCC
* **
22724277 AATGTAAGACCATGTCTAAGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
22724306 CTATAATTTA
Statistics
Matches: 171, Mismatches: 41, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
46 1 0.01
47 6 0.04
48 158 0.92
49 5 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTAGCCATGATATGAGAGCC
Found at i:22724302 original size:96 final size:95
Alignment explanation
Indices: 22724034--22724306 Score: 248
Period size: 96 Copynumber: 2.8 Consensus size: 95
22724024 TGATATGTGT
* * *
22724034 GCTAGTGTAAGACCATGTCTGGGACATGGCGTTAGCCACGATATG-AGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATATGTA-AGCCAGTGTAAGACCAT
* * * *
22724098 GTTTGGAACATGGCATCGGCAATGTTATGAGA
65 GTTAGG-ACATGGCATCAGCAATGTAAAGAGA
* * * * * * ** *
22724130 TCCAGTGTAAGACTATGT-TCGGGACATGGCATTGACATTGATATGTGTGCTAGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCT-GGGACATGGCATTGGCCTCGATATGTAAGCCAGTGTAAGACCAT
* * *
22724194 GTTTGGGTCATGGCATCAG-TAT-TAAGAGAAGA
65 G-TTAGGACATGGCATCAGCAATGTAA-AG-AGA
* * *
22724226 GCTAGTGTAAGACCATGTCTGGGACATGGTATTGGCCTCGACATGTAAGCCAATGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATATGTAAGCCAGTGTAAGACCATG
*
22724291 TCTAAGACATGGCATC
66 T-TAGGACATGGCATC
22724307 TATAATTTAC
Statistics
Matches: 137, Mismatches: 33, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
94 2 0.01
95 5 0.04
96 125 0.91
97 5 0.04
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (95 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATATGTAAGCCAGTGTAAGACCATG
TTAGGACATGGCATCAGCAATGTAAAGAGA
Found at i:22732087 original size:18 final size:18
Alignment explanation
Indices: 22732064--22732101 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
22732054 AATATATATT
22732064 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
22732082 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
22732100 AA
1 AA
22732102 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:22732094 original size:13 final size:13
Alignment explanation
Indices: 22732078--22732102 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22732068 CAAGTACCCA
22732078 ACCCAACCCAATT
1 ACCCAACCCAATT
22732091 ACCCAACCCAAT
1 ACCCAACCCAAT
22732103 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:22732180 original size:7 final size:6
Alignment explanation
Indices: 22732127--22732179 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
22732117 ATAATTTAAT
* * *
22732127 AAATAA AAATAA AAATCTAA AACTAA AACTAA AACTAA AAATAA AAATAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAATAA
22732177 AAA
1 AAA
22732180 ACATAAAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 38 0.88
8 5 0.12
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:22732213 original size:9 final size:9
Alignment explanation
Indices: 22732199--22732266 Score: 91
Period size: 9 Copynumber: 7.6 Consensus size: 9
22732189 TTTATACAAA
22732199 TAATTCGGT
1 TAATTCGGT
22732208 TAATTCGGT
1 TAATTCGGT
*
22732217 TAATTCAGT
1 TAATTCGGT
* *
22732226 TAATTTGGG
1 TAATTCGGT
*
22732235 TAATTCGGG
1 TAATTCGGT
22732244 TAATTCGGT
1 TAATTCGGT
*
22732253 TGATTCGGT
1 TAATTCGGT
22732262 TAATT
1 TAATT
22732267 TTATACTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:22732248 original size:36 final size:36
Alignment explanation
Indices: 22732199--22732267 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
22732189 TTTATACAAA
*
22732199 TAATTCGGTTAATTCGGTTAATTCAGTTAATTTGGG
1 TAATTCGGGTAATTCGGTTAATTCAGTTAATTTGGG
* *
22732235 TAATTCGGGTAATTCGGTTGATTCGGTTAATTT
1 TAATTCGGGTAATTCGGTTAATTCAGTTAATTT
22732268 TATACTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.45
Consensus pattern (36 bp):
TAATTCGGGTAATTCGGTTAATTCAGTTAATTTGGG
Found at i:22733167 original size:5 final size:5
Alignment explanation
Indices: 22733159--22733350 Score: 384
Period size: 5 Copynumber: 38.4 Consensus size: 5
22733149 TTTATATTAC
22733159 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
22733209 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
22733259 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
22733309 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
22733351 CATTTACTTA
Statistics
Matches: 187, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 187 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:22748968 original size:12 final size:12
Alignment explanation
Indices: 22748953--22748977 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22748943 AGTTCACCGA
22748953 GGAGTGAAGGGG
1 GGAGTGAAGGGG
22748965 GGAGTGAAGGGG
1 GGAGTGAAGGGG
22748977 G
1 G
22748978 TGATGGTTAG
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:0.24, C:0.00, G:0.68, T:0.08
Consensus pattern (12 bp):
GGAGTGAAGGGG
Found at i:22751220 original size:21 final size:20
Alignment explanation
Indices: 22751195--22751234 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
22751185 TCTTTTTGCG
22751195 GGTTTATATTTAGGATTTATT
1 GGTTTATATTT-GGATTTATT
* *
22751216 GGTTTCTATTTGGTTTTAT
1 GGTTTATATTTGGATTTAT
22751235 ATTAAAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.17, C:0.03, G:0.20, T:0.60
Consensus pattern (20 bp):
GGTTTATATTTGGATTTATT
Found at i:22753485 original size:24 final size:24
Alignment explanation
Indices: 22753458--22753505 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
22753448 TCAGTTTTGA
22753458 ATTCTAGGAAGTCTTTTAGATGAG
1 ATTCTAGGAAGTCTTTTAGATGAG
22753482 ATTCTAGGAAGTCTTTTAGATGAG
1 ATTCTAGGAAGTCTTTTAGATGAG
22753506 GAATAGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.38
Consensus pattern (24 bp):
ATTCTAGGAAGTCTTTTAGATGAG
Found at i:22760558 original size:40 final size:40
Alignment explanation
Indices: 22760503--22760605 Score: 145
Period size: 40 Copynumber: 2.6 Consensus size: 40
22760493 GGATATAGCT
*
22760503 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGATT-GAGTA
* * *
22760543 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGATTGAGTA
*
22760583 ATTCGCACAAATGCCTTCGGGAC
1 ACTCGCACAAATGCCTTCGGGAC
22760606 NNNNNNNNNN
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 54 0.96
41 2 0.04
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAGCCCGGATTGAGTA
Found at i:22766913 original size:37 final size:37
Alignment explanation
Indices: 22766872--22766945 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
22766862 ATGAGCGTAT
22766872 TAATTGAAATTATTACAGCAAGATCGCTCATTCCCAA
1 TAATTGAAATTATTACAGCAAGATCGCTCATTCCCAA
*
22766909 TAATTGAAATTATTACAGCAAGATCGTTCATTCCCAA
1 TAATTGAAATTATTACAGCAAGATCGCTCATTCCCAA
22766946 ATCACGTACC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (37 bp):
TAATTGAAATTATTACAGCAAGATCGCTCATTCCCAA
Found at i:22767037 original size:40 final size:40
Alignment explanation
Indices: 22766987--22767215 Score: 234
Period size: 40 Copynumber: 5.7 Consensus size: 40
22766977 GCTACTCACT
* *
22766987 CAAATGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
22767027 CAATTGCCTTCGGGACTTAGCCCGGATT-TAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
22767067 CAAATGCCTTCGGGACGT-GCCCGGATATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
22767106 CAAAGGCCTTTGGGACTTAGCCCGGGTTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGTTATAGTAACTCGCA
* * ** * *
22767147 CGAATGCCTTCGGAACTTAGCCCGGAATTA-A-CCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGG--TTATAGTAACTCGCA
22767187 CAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 CAAATGCCT-TCGGGACTTAGCCCGGTTAT
22767216 CATCCGAACA
Statistics
Matches: 155, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
38 4 0.03
39 33 0.21
40 79 0.51
41 36 0.23
42 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:22767107 original size:79 final size:81
Alignment explanation
Indices: 22766987--22767172 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
22766977 GCTACTCACT
* **
22766987 CAAATGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCACAATTGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATAGAGTAACTCGCACAAAGGCCTTCGGGACTTAGCCCGG
*
22767052 ATT-TAGTAATTCGCA
66 ATTATAGTAACTCGCA
* * * *
22767067 CAAATGCCTTCGGGACGT-GCCCGGATATAGTAACTTGCACAAAGGCCTTTGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATAGAGTAACTCGCACAAAGGCCTTCGGGACTTAGCCCGG
* *
22767131 GTTATAGTAGCTCGCA
66 ATTATAGTAACTCGCA
* * *
22767147 CGAATGCCTTCGGAACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGA
22767173 ATTAACCACT
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 42 0.46
80 42 0.46
81 7 0.08
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACATAGCCCGGATAGAGTAACTCGCACAAAGGCCTTCGGGACTTAGCCCGG
ATTATAGTAACTCGCA
Found at i:22767191 original size:120 final size:120
Alignment explanation
Indices: 22766987--22767211 Score: 276
Period size: 120 Copynumber: 1.9 Consensus size: 120
22766977 GCTACTCACT
* *
22766987 CAAATGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCACAATTGCCTTCGGGACTTAGCCCGG
1 CAAAGGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCACAATTGCCTTCGGAACTTAGCCCGG
* ** * *
22767052 ATTTAGTAATTCGCACAAATGC-CTTCGGGACGT-GCCCGGATATAGTAACTTGCA
66 AATTAACAACTAGCACAAATGCTC-TCGGGACGTAGCCCGGATATAGTAACTTGCA
* * * *
22767106 CAAAGGCCTTTGGGACTTAGCCCGGGTTATAGTAGCTCGCACGAA-TGCCTTCGGAACTTAGCCC
1 CAAAGGCCTTCGGGACATAGCCC-GGTTAGAGTAACTCGCAC-AATTGCCTTCGGAACTTAGCCC
* * *
22767170 GGAATTAACCACTAGCTCAAATGCTCTCGGGACTTAGCCCGG
64 GGAATTAACAACTAGCACAAATGCTCTCGGGACGTAGCCCGG
22767212 TTATCATCCG
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
119 20 0.23
120 59 0.67
121 9 0.10
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (120 bp):
CAAAGGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCACAATTGCCTTCGGAACTTAGCCCGG
AATTAACAACTAGCACAAATGCTCTCGGGACGTAGCCCGGATATAGTAACTTGCA
Found at i:22768515 original size:10 final size:10
Alignment explanation
Indices: 22768497--22768533 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
22768487 AACATGAGAG
22768497 CTTTCTTTTT
1 CTTTCTTTTT
*
22768507 CTTTTTTTTT
1 CTTTCTTTTT
22768517 CTTTCTTTTT
1 CTTTCTTTTT
22768527 CTTTCTT
1 CTTTCTT
22768534 CTATTCGGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:22768523 original size:14 final size:14
Alignment explanation
Indices: 22768504--22768533 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22768494 GAGCTTTCTT
*
22768504 TTTCTTTTTTTTTC
1 TTTCTTTTTCTTTC
22768518 TTTCTTTTTCTTTC
1 TTTCTTTTTCTTTC
22768532 TT
1 TT
22768534 CTATTCGGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTCTTTTTCTTTC
Found at i:22791888 original size:40 final size:40
Alignment explanation
Indices: 22791833--22792094 Score: 465
Period size: 40 Copynumber: 6.6 Consensus size: 40
22791823 TATTCGGATG
*
22791833 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
22791873 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
22791913 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
22791953 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
22791993 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
22792033 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
22792073 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
22792095 TACTTGGGTT
Statistics
Matches: 216, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
39 14 0.06
40 200 0.93
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:22796372 original size:27 final size:27
Alignment explanation
Indices: 22796334--22796413 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
22796324 AACACGTCGG
*
22796334 GAAAGAAAAGCCTTTGTGGCGAAATGT
1 GAAAGAAAAGCCTTTGTGGCGAAATAT
* *
22796361 GAAAGAAAAGCCTTTTTGGTGAAATAT
1 GAAAGAAAAGCCTTTGTGGCGAAATAT
* *
22796388 GAAATG-AATGCCTTTGTGTC-AAATAT
1 GAAA-GAAAAGCCTTTGTGGCGAAATAT
22796414 TGAATGGATC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
26 6 0.13
27 38 0.84
28 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGGCGAAATAT
Found at i:22800470 original size:29 final size:27
Alignment explanation
Indices: 22800382--22800472 Score: 83
Period size: 29 Copynumber: 3.2 Consensus size: 27
22800372 TATCTGTACC
** *
22800382 TGGCCCATTAAGCCCAATCGTATTCATA
1 TGGCCCATT-AGCCCAATCACATTTATA
* * *
22800410 TGACCCATTAGGCCCAAATCACCTGTATA
1 TGGCCCATTA-GCCC-AATCACATTTATA
22800439 TGGCCCATTAGTCCCAATTCACATTTATA
1 TGGCCCATTAG-CCCAA-TCACATTTATA
22800468 TGGCC
1 TGGCC
22800473 TGTTCGGCCC
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
27 1 0.02
28 15 0.30
29 34 0.68
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (27 bp):
TGGCCCATTAGCCCAATCACATTTATA
Found at i:22815393 original size:29 final size:28
Alignment explanation
Indices: 22815333--22815416 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 28
22815323 CCTGTACCTA
* **
22815333 GCCCATTAAGCCCAATCGTATTCATATC
1 GCCCATTAGGCCCAATCACATTCATATC
* *
22815361 GCCCATTAGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCC-AATCACATTCATATC
* * *
22815390 GCCCGTTCGGCCCAGTCACATTCATAT
1 GCCCATTAGGCCCAATCACATTCATAT
22815417 TCATGCTCAC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
28 24 0.52
29 22 0.48
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.27
Consensus pattern (28 bp):
GCCCATTAGGCCCAATCACATTCATATC
Found at i:22818468 original size:25 final size:25
Alignment explanation
Indices: 22818440--22818487 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22818430 CTTTAATTGT
* *
22818440 CAATTTGGTAATTTTTTTATTTATG
1 CAATTTAGTAATTTTTTCATTTATG
*
22818465 CAATTTAGTCATTTTTTCATTTA
1 CAATTTAGTAATTTTTTCATTTA
22818488 AACCCCAATT
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:0.08, G:0.08, T:0.58
Consensus pattern (25 bp):
CAATTTAGTAATTTTTTCATTTATG
Found at i:22822808 original size:44 final size:44
Alignment explanation
Indices: 22822745--22822850 Score: 212
Period size: 44 Copynumber: 2.4 Consensus size: 44
22822735 GATTCTGATT
22822745 TATGTGTACGAGTAAGACTATGGCATCGATATGTGATTTCGATA
1 TATGTGTACGAGTAAGACTATGGCATCGATATGTGATTTCGATA
22822789 TATGTGTACGAGTAAGACTATGGCATCGATATGTGATTTCGATA
1 TATGTGTACGAGTAAGACTATGGCATCGATATGTGATTTCGATA
22822833 TATGTGTACGAGTAAGAC
1 TATGTGTACGAGTAAGAC
22822851 CCTGTCTGGG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (44 bp):
TATGTGTACGAGTAAGACTATGGCATCGATATGTGATTTCGATA
Found at i:22826308 original size:13 final size:13
Alignment explanation
Indices: 22826290--22826314 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22826280 TAATGGTATA
22826290 TTGAATCCATGAC
1 TTGAATCCATGAC
22826303 TTGAATCCATGA
1 TTGAATCCATGA
22826315 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:22826893 original size:27 final size:27
Alignment explanation
Indices: 22826862--22827039 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
22826852 TAAATTGTAC
22826862 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
22826889 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22826915 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
22826943 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
22826971 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22826998 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
22827025 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22827040 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:22826976 original size:82 final size:81
Alignment explanation
Indices: 22826863--22827018 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
22826853 AAATTGTACA
* *
22826863 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
22826927 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
22826944 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
22827009 TGCGAGTTGA
65 TGCGAATTGA
22827019 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:22827030 original size:82 final size:81
Alignment explanation
Indices: 22826859--22827039 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
22826849 GATTAAATTG
* *
22826859 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
22826924 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
22826940 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
22827004 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
22827022 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
22827040 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:22828608 original size:386 final size:386
Alignment explanation
Indices: 22827895--22828666 Score: 1397
Period size: 386 Copynumber: 2.0 Consensus size: 386
22827885 ATGGGCAGTA
*
22827895 TATTAAGAGATAATCAGATTTTTGTGGGACAGGGCCAGAACGGTTTCTGGATTCCCTGCTCCGAC
1 TATTAAGAGATAATCAGATTTTAGTGGGACAGGGCCAGAACGGTTTCTGGATTCCCTGCTCCGAC
22827960 TTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGGGTCGTACCATATATGTACAGATTCCT
66 TTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGGGTCGTACCATATATGTACAGATTCCT
22828025 CTCTGAGTCTAGTTTTCATAGAAACAAACGGCATCAGTATTGAAGCCCCGTGCAGGGAGATATCC
131 CTCTGAGTCTAGTTTTCATAGAAACAAACGGCATCAGTATTGAAGCCCCGTGCAGGGAGATATCC
*
22828090 AAGTCGTAATGGGCAAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTTTGACTAATAAAC
196 AAGTCGTAATGGGAAAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTTTGACTAATAAAC
*
22828155 TGTACTAATTGGCCCGACCAAAAATTCTAGAAAAAAATACATAGATGGGCACATGAGTCTAGTTT
261 TGTACTAATTGGCCCAACCAAAAATTCTAGAAAAAAATACATAGATGGGCACATGAGTCTAGTTT
22828220 CTGGGAAAAAATAC-ATAGA-TG-TACATCGAGTTACGAAACTCAAGATATGATTTCTAAAACG
326 CTGGGAAAAAATACGA-A-ACTGAT-CATCGAGTTACGAAACTCAAGATATGATTTCTAAAACG
22828281 TATTAAGAGATAATCAGATTTTAGTGGGACAGGGCCAGAACGGTTTCTGGATTCCCTGCTCCGAC
1 TATTAAGAGATAATCAGATTTTAGTGGGACAGGGCCAGAACGGTTTCTGGATTCCCTGCTCCGAC
*
22828346 TTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGGGTCTTACCATATATGTACAGATTCCT
66 TTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGGGTCGTACCATATATGTACAGATTCCT
*
22828411 CTCTGAGTCTAGTTTTCATAGAAACAAACGGCATCAGTATTGAAGCCCCGTGTAGGGAGATATCC
131 CTCTGAGTCTAGTTTTCATAGAAACAAACGGCATCAGTATTGAAGCCCCGTGCAGGGAGATATCC
*
22828476 AAGTCGTAATGGGAAAAGGTCAGTGTAGTCGATCCCTGCAACATGGGAGACTTTGACTAATAAAC
196 AAGTCGTAATGGGAAAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTTTGACTAATAAAC
22828541 TGTACTAATTGGCCCAACCAAAAATTCTAGAAAAAAATACATAGATGGGCACATGAGTCTAGTTT
261 TGTACTAATTGGCCCAACCAAAAATTCTAGAAAAAAATACATAGATGGGCACATGAGTCTAGTTT
* ** * *
22828606 CTGGGAAAAATTACGAAACTGATTTTTGAGTTACGAAACTCAAGATATGATTTTTAAAACG
326 CTGGGAAAAAATACGAAACTGATCATCGAGTTACGAAACTCAAGATATGATTTCTAAAACG
22828667 ACTAGTACAC
Statistics
Matches: 372, Mismatches: 11, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
385 1 0.00
386 369 0.99
387 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27
Consensus pattern (386 bp):
TATTAAGAGATAATCAGATTTTAGTGGGACAGGGCCAGAACGGTTTCTGGATTCCCTGCTCCGAC
TTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGGGTCGTACCATATATGTACAGATTCCT
CTCTGAGTCTAGTTTTCATAGAAACAAACGGCATCAGTATTGAAGCCCCGTGCAGGGAGATATCC
AAGTCGTAATGGGAAAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTTTGACTAATAAAC
TGTACTAATTGGCCCAACCAAAAATTCTAGAAAAAAATACATAGATGGGCACATGAGTCTAGTTT
CTGGGAAAAAATACGAAACTGATCATCGAGTTACGAAACTCAAGATATGATTTCTAAAACG
Found at i:22837397 original size:42 final size:44
Alignment explanation
Indices: 22837274--22837430 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 44
22837264 GTTATCGAGT
* *
22837274 TGTGATTACATGTAAGACCATGTCTGGGACATTAGCATTGTAT-
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTATA
*
22837317 TGTGATTACGTGTAAGACCATGTTTGGGACATTAGCATCGTATA
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTATA
* * * * *
22837361 T-TGATT-CGTGTAAGACCCTGTCTAGGATAATGGCATCG-ATA
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTATA
* ** * *
22837402 TGTGATAACAAGTAAGACAATATCTGGGA
1 TGTGATTACGTGTAAGACCATGTCTGGGA
22837431 TATGGCATTG
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.04
42 30 0.32
43 60 0.63
44 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (44 bp):
TGTGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTATA
Found at i:22837562 original size:43 final size:44
Alignment explanation
Indices: 22837516--22837664 Score: 173
Period size: 43 Copynumber: 3.5 Consensus size: 44
22837506 GTTATCGAGT
*
22837516 TGTGATTACATGTAAGACCATGTCT-GGAACATTGGCATTGTAT-
1 TGTGATTACATGTAAGACCATGTCTAGG-ACATTGGCATCGTATA
** * *
22837559 TGTGATTATGTGTAAGACCATTTCTAGGACATTGGCATCATATA
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATA
* * *
22837603 T-TGATT-CGTGTAAGACCTTGTCTAGGACAGTGGCATCG-ATA
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATA
*
22837644 TGTGATAACATGTAAGACCAT
1 TGTGATTACATGTAAGACCAT
22837665 TTTTGGGATA
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.04
42 31 0.35
43 51 0.57
44 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (44 bp):
TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATA
Found at i:22837639 original size:242 final size:241
Alignment explanation
Indices: 22837203--22837686 Score: 772
Period size: 242 Copynumber: 2.0 Consensus size: 241
22837193 CAAAGTTACA
* *
22837203 ACATCTGAAAGTCCCTTACAAACCTTAGAAATAGCATAGGATACGAATGTCATGACATTAGGTTA
1 ACATATGAAAGTCCCGTACAAACCTTAGAAATAGCATAGGATACGAATGTCATGACATTAGGTTA
*
22837268 TCGAGTTGTGATTACATGTAAGACCATGTCTGGGACATTAGCATTGTATTGTGATTACGTGTAAG
66 TCGAGTTGTGATTACATGTAAGACCATGTCTGGAACATTAGCATTGTATTGTGATTACGTGTAAG
* * *
22837333 ACCATGTTTGGGACATTAGCATCGTATATTGATTCGTGTAAGACCCTGTCTAGGATAATGGCATC
131 ACCATGTTTAGGACATTAGCATCATATATTGATTCGTGTAAGACCCTGTCTAGGACAATGGCATC
22837398 GATATGTGATAACAAGTAAGACAATATCTGGGATATGGCATTGTACG
196 GATATGTGATAACAAGTAAGACAATATCTGGGATAT-GCATTGTACG
* * * *
22837445 ACATATGAAAGTCTCGTACGAACCTTTGGAATAGCATAGGATACGAATGTCATGACATTAGGTTA
1 ACATATGAAAGTCCCGTACAAACCTTAGAAATAGCATAGGATACGAATGTCATGACATTAGGTTA
* *
22837510 TCGAGTTGTGATTACATGTAAGACCATGTCTGGAACATTGGCATTGTATTGTGATTATGTGTAAG
66 TCGAGTTGTGATTACATGTAAGACCATGTCTGGAACATTAGCATTGTATTGTGATTACGTGTAAG
* * *
22837575 ACCAT-TTCTAGGACATTGGCATCATATATTGATTCGTGTAAGACCTTGTCTAGGACAGTGGCAT
131 ACCATGTT-TAGGACATTAGCATCATATATTGATTCGTGTAAGACCCTGTCTAGGACAATGGCAT
* * * *
22837639 CGATATGTGATAACATGTAAGACCATTTTTGGGATATGCATTGTACG
195 CGATATGTGATAACAAGTAAGACAATATCTGGGATATGCATTGTACG
22837686 A
1 A
22837687 GCTTATGTGA
Statistics
Matches: 222, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
241 13 0.06
242 209 0.94
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (241 bp):
ACATATGAAAGTCCCGTACAAACCTTAGAAATAGCATAGGATACGAATGTCATGACATTAGGTTA
TCGAGTTGTGATTACATGTAAGACCATGTCTGGAACATTAGCATTGTATTGTGATTACGTGTAAG
ACCATGTTTAGGACATTAGCATCATATATTGATTCGTGTAAGACCCTGTCTAGGACAATGGCATC
GATATGTGATAACAAGTAAGACAATATCTGGGATATGCATTGTACG
Found at i:22855308 original size:21 final size:21
Alignment explanation
Indices: 22855259--22855300 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
22855249 ATGATTAAAA
22855259 CAAGAGTTGTTCACCAAATTG
1 CAAGAGTTGTTCACCAAATTG
22855280 CAAGAGTTGTTCACCAAATTG
1 CAAGAGTTGTTCACCAAATTG
22855301 TAGGAGTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (21 bp):
CAAGAGTTGTTCACCAAATTG
Found at i:22875634 original size:12 final size:12
Alignment explanation
Indices: 22875617--22875647 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
22875607 TTGAAGGTTG
*
22875617 TGAGGAGAGATT
1 TGAGGAGAGACT
22875629 TGAGGAGAGACT
1 TGAGGAGAGACT
22875641 TGAGGAG
1 TGAGGAG
22875648 GGGATCATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.45, T:0.19
Consensus pattern (12 bp):
TGAGGAGAGACT
Found at i:22877514 original size:40 final size:40
Alignment explanation
Indices: 22877406--22877535 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 40
22877396 TCTTCGGAAT
* * *
22877406 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAACCACTAGCACAAATGCCTTCGGGTC
* * * * * *
22877445 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAACCACTAGCACAAATGCCTTCGGGTC
* * *
22877485 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAACCACTAGCACAAATGCCTTCGGGTC
22877525 TTAGCCCGGAT
1 TTAGCCCGGAT
22877536 CTCATTCAAA
Statistics
Matches: 74, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
39 3 0.04
40 71 0.96
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATAAAACCACTAGCACAAATGCCTTCGGGTC
Found at i:22880717 original size:34 final size:34
Alignment explanation
Indices: 22880674--22880741 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
22880664 TGCATTTCTA
*
22880674 TTACTGTTACCAAAATGGGTTAAAGCCCACACTG
1 TTACTGTTACCAAAATGGGCTAAAGCCCACACTG
*** *
22880708 TTACTGTTACTGTAATGGGCTAAGGCCCACACTG
1 TTACTGTTACCAAAATGGGCTAAAGCCCACACTG
22880742 ATACAGAGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (34 bp):
TTACTGTTACCAAAATGGGCTAAAGCCCACACTG
Found at i:22886652 original size:47 final size:48
Alignment explanation
Indices: 22886489--22886664 Score: 180
Period size: 49 Copynumber: 3.6 Consensus size: 48
22886479 ATTGTGTGCT
* * * *
22886489 AGTGTAAGA-CATGTTTGGGACATGGCATCGGCACGGATATGCGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTC-GAT-T-CGATGAGCC
* *
22886538 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTCGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGA-TTCGATGAGCC
* * * * *
22886587 AGTGTAAGAACATTTCTGGGACATGGGATCGACTTGA-TGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATTCGATGAGCC
22886634 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
22886665 GCATTATACC
Statistics
Matches: 107, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
46 4 0.04
47 31 0.29
48 5 0.05
49 41 0.38
50 22 0.21
51 4 0.04
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATTCGATGAGCC
Found at i:22890619 original size:48 final size:46
Alignment explanation
Indices: 22890551--22890682 Score: 156
Period size: 48 Copynumber: 2.8 Consensus size: 46
22890541 CCACATTATG
* *
22890551 AGAGCCAGTGTAAGACCATGTTTGGGACATGGTATCGTCATTGAGACA
1 AGAGCCAGTGTAAGA-CATGTTTGGGACATGGAATCGT-ATTAAGACA
* * * *
22890599 AGATCCAGTGTAAGATCATGTCTCGGACATGGAATCGGTATTAAGACG
1 AGAGCCAGTGTAAGA-CATGTTTGGGACATGGAATC-GTATTAAGACA
* *
22890647 AGAGCTAGTGTAAGACATGTTTGGGACATGGCATCG
1 AGAGCCAGTGTAAGACATGTTTGGGACATGGAATCG
22890683 GCTTGACATG
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
46 1 0.01
47 17 0.24
48 51 0.72
49 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (46 bp):
AGAGCCAGTGTAAGACATGTTTGGGACATGGAATCGTATTAAGACA
Found at i:22890783 original size:49 final size:49
Alignment explanation
Indices: 22890511--22890873 Score: 143
Period size: 48 Copynumber: 7.7 Consensus size: 49
22890501 GATGTGTGCT
* * * * *
22890511 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCAC-AT-TATGAGAGCC
1 AGTGTAAGACCTGTTTGGGACATGGCATCAGCCTCGATAGATGAGAGCC
* ** *
22890557 AGTGTAAGACCATGTTTGGGACATGGTATC-G--TC-ATTGAGACAAGATCC
1 AGTGTAAGACC-TGTTTGGGACATGGCATCAGCCTCGA-T-AGATGAGAGCC
* * * * * ** * * *
22890605 AGTGTAAGATCATGTCTCGGACATGGAATCGGTAT-TA-AGACGAGAGCT
1 AGTGTAAGA-CCTGTTTGGGACATGGCATCAGCCTCGATAGATGAGAGCC
* * * * * *
22890653 AGTGTAAGACATGTTTGGGACATGGCATC-GGCTTG--ACAT--GTGTC
1 AGTGTAAGACCTGTTTGGGACATGGCATCAGCCTCGATAGATGAGAGCC
* ** * **
22890697 AGAGTAAGACCTG-TCAGGACATGGCATTGATAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTTTGGGACATGGCA-TCAGCCTCGATAGATGAGAGCC
* * * *
22890745 AGTGTAAGACCTATTTGGGACATGGCATCAGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTTTGGGACATGGCATCAGCCTCGATAGATGAGAGCC
* * * * * * *
22890794 AGTGTAGGACCTGTCTGGGACATGGTATC-GACTTAGAT-G-TGTGAGCT
1 AGTGTAAGACCTGTTTGGGACATGGCATCAG-CCTCGATAGATGAGAGCC
*
22890841 AGTGTAAGACCATGTTTGGAACATGGCATCAGC
1 AGTGTAAGACC-TGTTTGGGACATGGCATCAGC
22890874 ATCGTACCCT
Statistics
Matches: 233, Mismatches: 62, Indels: 42
0.69 0.18 0.12
Matches are distributed among these distances:
43 11 0.05
44 15 0.06
45 3 0.01
46 18 0.08
47 43 0.18
48 85 0.36
49 56 0.24
51 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTTTGGGACATGGCATCAGCCTCGATAGATGAGAGCC
Found at i:22893542 original size:6 final size:6
Alignment explanation
Indices: 22893496--22893540 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
22893486 GAAATACACC
* *
22893496 GTAACG GTAACA GTAACA GTAACA GTAACA GTAACA GTAGCA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
22893541 GCGGTACACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:22894130 original size:20 final size:22
Alignment explanation
Indices: 22894080--22894136 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
22894070 TCCCCTGTTC
*
22894080 TTCTCTGTTTCATTTGCTTTGT
1 TTCTCTTTTTCATTTGCTTTGT
22894102 TTCTCTTTTTCATTT-CTTT-T
1 TTCTCTTTTTCATTTGCTTTGT
22894122 GTT-TCTTTTTCATTT
1 -TTCTCTTTTTCATTT
22894137 ATTATTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 13 0.39
21 6 0.18
22 14 0.42
ACGTcount: A:0.05, C:0.18, G:0.07, T:0.70
Consensus pattern (22 bp):
TTCTCTTTTTCATTTGCTTTGT
Found at i:22894289 original size:14 final size:15
Alignment explanation
Indices: 22894265--22894310 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
22894255 ATAAATATCT
22894265 TATAATATAATTATAA
1 TATAAT-TAATTATAA
22894281 TA-AATTAATT-TAA
1 TATAATTAATTATAA
*
22894294 TATAATTTATTACTAA
1 TATAATTAATTA-TAA
22894310 T
1 T
22894311 TCATATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.19
14 12 0.46
15 3 0.12
16 6 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TATAATTAATTATAA
Found at i:22896625 original size:12 final size:12
Alignment explanation
Indices: 22896608--22896634 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22896598 CATTTTTGAG
22896608 TTAACATGAACA
1 TTAACATGAACA
22896620 TTAACATGAACA
1 TTAACATGAACA
22896632 TTA
1 TTA
22896635 TCACAATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (12 bp):
TTAACATGAACA
Found at i:22898904 original size:12 final size:11
Alignment explanation
Indices: 22898886--22898915 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
22898876 TTCAAACCAC
22898886 AACCAATACTA
1 AACCAATACTA
22898897 ATACCAATACTA
1 A-ACCAATACTA
22898909 AACCAAT
1 AACCAAT
22898916 CCAAACACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (11 bp):
AACCAATACTA
Found at i:22899118 original size:111 final size:111
Alignment explanation
Indices: 22898873--22899099 Score: 445
Period size: 111 Copynumber: 2.0 Consensus size: 111
22898863 CATCCTTGCA
*
22898873 AATTTCAAACCACAACCAATACTAATACCAATACTAAACCAATCCAAACACATTTTATATATTAT
1 AATTTCAAACCACAACCAATACAAATACCAATACTAAACCAATCCAAACACATTTTATATATTAT
22898938 CCAATACTTGACTTAAAACACTTATCATGTATCATTCTCAATTATC
66 CCAATACTTGACTTAAAACACTTATCATGTATCATTCTCAATTATC
22898984 AATTTCAAACCACAACCAATACAAATACCAATACTAAACCAATCCAAACACATTTTATATATTAT
1 AATTTCAAACCACAACCAATACAAATACCAATACTAAACCAATCCAAACACATTTTATATATTAT
22899049 CCAATACTTGACTTAAAACACTTATCATGTATCATTCTCAATTATC
66 CCAATACTTGACTTAAAACACTTATCATGTATCATTCTCAATTATC
22899095 AATTT
1 AATTT
22899100 ACTTATTTCA
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 115 1.00
ACGTcount: A:0.43, C:0.24, G:0.02, T:0.32
Consensus pattern (111 bp):
AATTTCAAACCACAACCAATACAAATACCAATACTAAACCAATCCAAACACATTTTATATATTAT
CCAATACTTGACTTAAAACACTTATCATGTATCATTCTCAATTATC
Found at i:22899569 original size:18 final size:18
Alignment explanation
Indices: 22899548--22899588 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
22899538 ATAATCAGTA
22899548 ATTCAATAACAGTCAAAT
1 ATTCAATAACAGTCAAAT
* * *
22899566 ATTCAGTAGCAGTCAATT
1 ATTCAATAACAGTCAAAT
22899584 ATTCA
1 ATTCA
22899589 GTACCTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (18 bp):
ATTCAATAACAGTCAAAT
Found at i:22899589 original size:18 final size:18
Alignment explanation
Indices: 22899557--22899591 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22899547 AATTCAATAA
22899557 CAGTCAAATATTCAGTAG
1 CAGTCAAATATTCAGTAG
*
22899575 CAGTCAATTATTCAGTA
1 CAGTCAAATATTCAGTA
22899592 CCTTTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (18 bp):
CAGTCAAATATTCAGTAG
Found at i:22899714 original size:6 final size:6
Alignment explanation
Indices: 22899699--22899737 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
22899689 GGAATACATC
* *
22899699 GTAACG GTAACA GTAACA GTAACA GTAACA ATAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
22899738 GCAATAGCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:22899742 original size:12 final size:12
Alignment explanation
Indices: 22899706--22899743 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
22899696 ATCGTAACGG
*
22899706 TAACAGTAACAG
1 TAACAGTAACAA
22899718 TAACAGTAACAA
1 TAACAGTAACAA
*
22899730 TAACAGTAGCAA
1 TAACAGTAACAA
22899742 TA
1 TA
22899744 GCGATACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.53, C:0.16, G:0.13, T:0.18
Consensus pattern (12 bp):
TAACAGTAACAA
Found at i:22900320 original size:22 final size:20
Alignment explanation
Indices: 22900286--22900341 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 20
22900276 CCCCTGTTCT
*
22900286 TTTCTGTTTCATTTGC-TTTG
1 TTTCTTTTTCATTT-CTTTTG
22900306 TTTCTCTTTTTCATTTCTTTTG
1 -TT-TCTTTTTCATTTCTTTTG
22900328 TTTCTTTTTCATTT
1 TTTCTTTTTCATTT
22900342 ATTATTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 12 0.38
21 5 0.16
22 15 0.47
ACGTcount: A:0.05, C:0.16, G:0.07, T:0.71
Consensus pattern (20 bp):
TTTCTTTTTCATTTCTTTTG
Found at i:22900335 original size:20 final size:21
Alignment explanation
Indices: 22900285--22900341 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
22900275 TCCCCTGTTC
*
22900285 TTTTCTGTTTCATTTGCTTTG
1 TTTTCTTTTTCATTTGCTTTG
22900306 TTTCTCTTTTTCATTT-CTTT-
1 TTT-TCTTTTTCATTTGCTTTG
22900326 TGTTTCTTTTTCATTT
1 T-TTTCTTTTTCATTT
22900342 ATTATTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
20 13 0.39
21 9 0.27
22 11 0.33
ACGTcount: A:0.05, C:0.16, G:0.07, T:0.72
Consensus pattern (21 bp):
TTTTCTTTTTCATTTGCTTTG
Found at i:22902971 original size:31 final size:31
Alignment explanation
Indices: 22902936--22903006 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
22902926 TTGCATTCAC
* * *
22902936 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTAATTCTGTCACCTAATACTG
*
22902967 ATTCTGATTTTAATTCTGTCACCTAATTCTG
1 ATTCTGATTTTAATTCTGTCACCTAATACTG
22902998 ATTCTGATT
1 ATTCTGATT
22903007 CTCATTTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTAATTCTGTCACCTAATACTG
Found at i:22902975 original size:6 final size:6
Alignment explanation
Indices: 22902936--22903030 Score: 50
Period size: 6 Copynumber: 15.5 Consensus size: 6
22902926 TTGCATTCAC
* * * *
22902936 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * * *
22902985 -TCACCTA ATTCTG ATTCTG ATTCTC ATTTTG ATTCTC ATTTTG ATT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT
22903031 TAGTTCTGAT
Statistics
Matches: 64, Mismatches: 19, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
5 3 0.05
6 54 0.84
7 5 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:22903017 original size:12 final size:12
Alignment explanation
Indices: 22902992--22903030 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
22902982 CTGTCACCTA
* *
22902992 ATTCTGATTCTG
1 ATTCTCATTTTG
22903004 ATTCTCATTTTG
1 ATTCTCATTTTG
22903016 ATTCTCATTTTG
1 ATTCTCATTTTG
22903028 ATT
1 ATT
22903031 TAGTTCTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.18, C:0.15, G:0.10, T:0.56
Consensus pattern (12 bp):
ATTCTCATTTTG
Found at i:22903080 original size:17 final size:17
Alignment explanation
Indices: 22903060--22903093 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22903050 TATTCTGTAA
*
22903060 TGGGCTAAGGCCCATCT
1 TGGGCTAAAGCCCATCT
*
22903077 TGGGTTAAAGCCCATCT
1 TGGGCTAAAGCCCATCT
22903094 GGTACTGTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (17 bp):
TGGGCTAAAGCCCATCT
Found at i:22905054 original size:54 final size:54
Alignment explanation
Indices: 22904989--22905167 Score: 198
Period size: 54 Copynumber: 3.3 Consensus size: 54
22904979 TTAGTTTACC
* * *
22904989 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCTCTGATTTGTA
* * * *
22905043 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTAATTTGTG
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCTCTGATTTGTA
** * * * * ** *
22905097 AAATTACTGAAATACTCTCGATCTGTAAAATTACTGAAATACCTC-GACTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCTCTGATTTGTA
*
22905150 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
22905168 CGATTTAAAA
Statistics
Matches: 101, Mismatches: 24, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
53 19 0.19
54 82 0.81
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCTCTGATTTGTA
Found at i:22905094 original size:27 final size:27
Alignment explanation
Indices: 22904989--22905173 Score: 173
Period size: 27 Copynumber: 6.9 Consensus size: 27
22904979 TTAGTTTACC
* *
22904989 AAATTACCAAAATACC-CTTGGTTTATA
1 AAATTACCAAAATACCTC-TGATTTGTA
* *
22905016 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCTCTGATTTGTA
*
22905043 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCTCTGA-TTTGTA
* *
22905070 AAATTACCAAAATACCTCTAATTTGTG
1 AAATTACCAAAATACCTCTGATTTGTA
** *
22905097 AAATTACTGAAATA-CTCTCGATCTGTA
1 AAATTACCAAAATACCTCT-GATTTGTA
** *
22905124 AAATTACTGAAATACCTC-GACTTGTA
1 AAATTACCAAAATACCTCTGATTTGTA
*
22905150 AAATTACCAAAGTACC-CTCGATTT
1 AAATTACCAAAATACCTCT-GATTT
22905174 AAAAAGTTAT
Statistics
Matches: 136, Mismatches: 15, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
25 1 0.01
26 23 0.17
27 107 0.79
28 5 0.04
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCTCTGATTTGTA
Found at i:22905196 original size:27 final size:27
Alignment explanation
Indices: 22905162--22905266 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
22905152 ATTACCAAAG
22905162 TACCCTCGATTTA-AAAAGTTATCGTTT
1 TACCCTCGATTTATAAAA-TTATCGTTT
* *
22905189 TACTCTCGATTTATAGAATTA-CTGTTT
1 TACCCTCGATTTATAAAATTATC-GTTT
* * *
22905216 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTATCGTTT
*
22905243 TACCCTCGATTTACAAAATTATCG
1 TACCCTCGATTTATAAAATTATCG
22905267 AAATACCCCT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
26 1 0.02
27 60 0.92
28 4 0.06
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTATCGTTT
Found at i:22905292 original size:27 final size:27
Alignment explanation
Indices: 22905262--22905371 Score: 157
Period size: 27 Copynumber: 4.1 Consensus size: 27
22905252 TTTACAAAAT
*
22905262 TATCGAAATACCCCTGTAGGGTGGAAA
1 TATCGAAATACCCCTGTAGGGTAGAAA
* *
22905289 TATCGAAATACCCCTATAGGGTAGAAT
1 TATCGAAATACCCCTGTAGGGTAGAAA
* * *
22905316 TACCGAAATATCCCTGTAGGGTAGAAT
1 TATCGAAATACCCCTGTAGGGTAGAAA
*
22905343 TATCGAAATACCCTTGTAGGGTAGAAA
1 TATCGAAATACCCCTGTAGGGTAGAAA
22905370 TA
1 TA
22905372 CCNNNNNNNN
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.25
Consensus pattern (27 bp):
TATCGAAATACCCCTGTAGGGTAGAAA
Found at i:22905457 original size:27 final size:27
Alignment explanation
Indices: 22905419--22905561 Score: 205
Period size: 27 Copynumber: 5.3 Consensus size: 27
22905409 NNNNNNNNNN
* *
22905419 TTTTACCCTCGATTTACAAAATTACTA
1 TTTTACCCTCGATTTACAGAATTACCA
22905446 TTTTACCCTCGATTTACAGAATTACCA
1 TTTTACCCTCGATTTACAGAATTACCA
* *
22905473 TTTTACCCTCAATTTACAGAATTACTA
1 TTTTACCCTCGATTTACAGAATTACCA
*
22905500 TTTTACCCTCGATTTACAGAATTACCG
1 TTTTACCCTCGATTTACAGAATTACCA
* * * *
22905527 TTATACCCTTGATTTATAAAATTACCA
1 TTTTACCCTCGATTTACAGAATTACCA
22905554 TTTTACCC
1 TTTTACCC
22905562 CTATGGTGTT
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.40
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAGAATTACCA
Found at i:22906005 original size:6 final size:6
Alignment explanation
Indices: 22905996--22906097 Score: 66
Period size: 6 Copynumber: 16.7 Consensus size: 6
22905986 TACCTGATAT
* * * * *
22905996 TGATTC TGATTC TAATTC TG-TCACC TAATTC TAATTC TGATTT TGATTC
1 TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC TGATTC
* * *
22906045 TGATTC TG-TCATC TGATTT TGATTC TGATTC TCATTT TGATTC T-AGTTC
1 TGATTC TGAT--TC TGATTC TGATTC TGATTC TGATTC TGATTC TGA-TTC
22906094 TGAT
1 TGAT
22906098 AATGTTTCTT
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
5 3 0.04
6 62 0.84
7 7 0.09
8 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.51
Consensus pattern (6 bp):
TGATTC
Found at i:22906046 original size:31 final size:31
Alignment explanation
Indices: 22905967--22906046 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
22905957 TTGCATTCAC
* * * *
22905967 ATTCTGATTTTGATTCTCTTACCTGATATTG
1 ATTCTGATTTTGATTCTGTCACCTAATATTA
* *
22905998 ATTCTGATTCTAATTCTGTCACCTAAT-TCTA
1 ATTCTGATTTTGATTCTGTCACCTAATAT-TA
22906029 ATTCTGATTTTGATTCTG
1 ATTCTGATTTTGATTCTG
22906047 ATTCTGTCAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 1 0.03
31 39 0.98
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTCACCTAATATTA
Found at i:22906086 original size:37 final size:37
Alignment explanation
Indices: 22905996--22906088 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
22905986 TACCTGATAT
*
22905996 TGATTCTGATTCTAATTCTGTCACCTAATTCTAATTC
1 TGATTCTGATTCTGATTCTGTCACCTAATTCTAATTC
* * * * *
22906033 TGATTTTGATTCTGATTCTGTCATCTGATTTTGATTC
1 TGATTCTGATTCTGATTCTGTCACCTAATTCTAATTC
* *
22906070 TGATTCTCATTTTGATTCT
1 TGATTCTGATTCTGATTCT
22906089 AGTTCTGATA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.19, C:0.17, G:0.12, T:0.52
Consensus pattern (37 bp):
TGATTCTGATTCTGATTCTGTCACCTAATTCTAATTC
Found at i:22906503 original size:19 final size:19
Alignment explanation
Indices: 22906479--22906516 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
22906469 ACAAAACATA
22906479 GGCGTGTCAAAGGCACACG
1 GGCGTGTCAAAGGCACACG
*
22906498 GGCGTGTCGAAGGCACACG
1 GGCGTGTCAAAGGCACACG
22906517 AACGTGTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.26, G:0.39, T:0.11
Consensus pattern (19 bp):
GGCGTGTCAAAGGCACACG
Found at i:22906522 original size:19 final size:19
Alignment explanation
Indices: 22906481--22906524 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
22906471 AAAACATAGG
**
22906481 CGTGTCAAAGGCACACGGG
1 CGTGTCAAAGGCACACGAA
*
22906500 CGTGTCGAAGGCACACGAA
1 CGTGTCAAAGGCACACGAA
22906519 CGTGTC
1 CGTGTC
22906525 CCTGTCTCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.25, C:0.27, G:0.34, T:0.14
Consensus pattern (19 bp):
CGTGTCAAAGGCACACGAA
Found at i:22909452 original size:27 final size:27
Alignment explanation
Indices: 22909422--22909599 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
22909412 ATATTGAGTC
* * * *
22909422 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
22909449 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22909476 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
22909504 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
22909531 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
22909558 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22909585 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22909600 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:22909561 original size:82 final size:81
Alignment explanation
Indices: 22909443--22909598 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
22909433 TGCTATATAA
* *
22909443 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
22909508 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
22909525 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
22909589 CACTTAGTGC
65 CACTTAGTGC
22909599 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:22917515 original size:27 final size:27
Alignment explanation
Indices: 22917485--22917662 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
22917475 ATATTGAGTC
* * * *
22917485 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
22917512 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22917539 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
22917567 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
22917594 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
22917621 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22917648 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22917663 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:22917624 original size:82 final size:81
Alignment explanation
Indices: 22917506--22917661 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
22917496 TGCTATATAA
* *
22917506 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
22917571 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
22917588 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
22917652 CACTTAGTGC
65 CACTTAGTGC
22917662 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:22933824 original size:55 final size:55
Alignment explanation
Indices: 22933708--22933838 Score: 138
Period size: 55 Copynumber: 2.4 Consensus size: 55
22933698 TGGCCGTGGG
* ** * **
22933708 CAAACCTGCCAAAACAATACGGGCGTGCGACACGCCCGTGCCTTGAAACCTTGGC
1 CAAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCAAGAAACCTTGGC
* * *
22933763 CAAACCTGTCAAATTAACACGGGTGTGCGACACGCCCGTGCCAAGCAA-CTATGGT
1 CAAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCAAGAAACCT-TGGC
* * *
22933818 CGAACCTGTTAGATTAACACG
1 CAAACCTGTCAAATTAACACG
22933839 AGCATGGGAC
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
54 2 0.03
55 61 0.97
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.18
Consensus pattern (55 bp):
CAAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCAAGAAACCTTGGC
Found at i:22935697 original size:6 final size:6
Alignment explanation
Indices: 22935683--22935735 Score: 72
Period size: 6 Copynumber: 9.0 Consensus size: 6
22935673 GATGTTTAAA
* * *
22935683 TTTA-T TTTATC TTTATT TTTATT TTTATT TTTATT TTTATT TATGTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
22935730 TTTATT
1 TTTATT
22935736 AATTTCACCT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
5 4 0.10
6 37 0.90
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:22937824 original size:13 final size:13
Alignment explanation
Indices: 22937806--22937831 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22937796 AAGCAATCGT
22937806 ACACGGGCGTGTC
1 ACACGGGCGTGTC
22937819 ACACGGGCGTGTC
1 ACACGGGCGTGTC
22937832 CCCGTCAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:22939036 original size:11 final size:11
Alignment explanation
Indices: 22939020--22939064 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
22939010 TAGTAAATAT
22939020 TATTTTATTAA
1 TATTTTATTAA
*
22939031 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
22939044 TATTTTATTAT
1 TATTTTATTAA
22939055 TATTTTATTA
1 TATTTTATTA
22939065 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:22942244 original size:11 final size:11
Alignment explanation
Indices: 22942228--22942272 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
22942218 TAGTAAATAT
22942228 TATTTTATTAA
1 TATTTTATTAA
*
22942239 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
22942252 TATTTTATTAT
1 TATTTTATTAA
22942263 TATTTTATTA
1 TATTTTATTA
22942273 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:22945288 original size:12 final size:12
Alignment explanation
Indices: 22945268--22945297 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22945258 TAGCCCTATA
*
22945268 CAGTATCAGTAG
1 CAGTGTCAGTAG
22945280 CAGTGTCAGTAG
1 CAGTGTCAGTAG
22945292 CAGTGT
1 CAGTGT
22945298 GGGCCTTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (12 bp):
CAGTGTCAGTAG
Found at i:22952728 original size:48 final size:47
Alignment explanation
Indices: 22952575--22952940 Score: 218
Period size: 48 Copynumber: 7.7 Consensus size: 47
22952565 ATGGATGTGT
* * *
22952575 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAATATGA-A
* * * * * * *
22952621 GCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCAT-TAAGACGAGA
1 GCTAGTGTAAGACC-TGTCTGGGACATGGCATCGGCCTCGAATATGA-A
* *
22952669 GCTAGTATAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATGTAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGA-ATATG-AA
* * * * *
22952717 GCTAGTGTAAGACCTGTCTAGGACATGGCATCAG-CTTG-ACATG-T
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAATATGAA
* * *
22952761 G-TCAGTGTTAGACCTGTCTAGGACATGGCATCGACAC-CG-ATAGCTGAAA
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGAATA--TG-AA
* * * * *
22952810 GCCAGTGTAAGACCTGTTTGGGACATAGCATTGGGCTCGATATATGAAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGA-ATATG-AA
* * * *
22952859 G-TCAGTGTAAGACCTGTCTGGGACAT-GCATCGACTTAGATGTATG-A
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGA-ATATGAA
* * *
22952905 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGC
1 GCTAGTGTAAGACC-TGTCTGGGACATGGCATCGGC
22952941 ATCGTACCCT
Statistics
Matches: 247, Mismatches: 51, Indels: 42
0.73 0.15 0.12
Matches are distributed among these distances:
43 1 0.00
44 29 0.12
45 3 0.01
46 38 0.15
47 35 0.14
48 75 0.30
49 63 0.26
51 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAATATGAA
Found at i:22952835 original size:49 final size:47
Alignment explanation
Indices: 22952578--22952938 Score: 176
Period size: 49 Copynumber: 7.6 Consensus size: 47
22952568 GATGTGTGCT
* * * *
22952578 AGTGTAAGACATGTCTGGGACAT-GCATCGGC-CACATTA-TGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACTC-GA-TAGTGAAAGCC
* * * * *
22952624 AGTGTAAGACCATGTTTGGGACATGGCATC-A-GC-ATTAAGACGAGAGCT
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGACTCGA-T-AG-TGAAAGCC
* * * * *
22952672 AGTATAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATA-TGTAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GACTC--GATAGTGAAAGCC
* * * * *
22952720 AGTGTAAGACCTGTCTAGGACATGGCATC-AGCTTGACA-TG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CTCGATAGTGAAAGCC
* * *
22952764 AGTGTTAGACCTGTCTAGGACATGGCATCGACACCGATAGCTGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-TCGATAG-TGAAAGCC
* * * * * *
22952813 AGTGTAAGACCTGTTTGGGACATAGCATTGGGCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCA-TCGACTCGATA-GTGAAAGCC
* *
22952862 AGTGTAAGACCTGTCTGGGACAT-GCATCGACTTAGAT-GT-ATGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-TCGATAGTGA-AAGCC
* *
22952908 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCG
22952939 GCATCGTACC
Statistics
Matches: 243, Mismatches: 46, Indels: 50
0.72 0.14 0.15
Matches are distributed among these distances:
44 30 0.12
45 8 0.03
46 36 0.15
47 38 0.16
48 60 0.25
49 65 0.27
50 4 0.02
51 1 0.00
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACTCGATAGTGAAAGCC
Done.