Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 258 of 410
Found at i:79622070 original size:14 final size:15
Alignment explanation
Indices: 79622046--79622076 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
79622036 ACTAAATAGG
79622046 AAAGAAAAGAAAGAA
1 AAAGAAAAGAAAGAA
79622061 AAAG-AAAGAAAGAA
1 AAAGAAAAGAAAGAA
79622075 AA
1 AA
79622077 GAGAGACGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAGAA
Found at i:79623320 original size:26 final size:26
Alignment explanation
Indices: 79623280--79623339 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
79623270 TGAAGTGGAT
*
79623280 ATGAAATGGATAATGCCATTTTGTAA
1 ATGAAATGGATAATGCCATTGTGTAA
*
79623306 ATGGAATGGATAATGCCATTGTGTAA
1 ATGAAATGGATAATGCCATTGTGTAA
79623332 ATGAAATG
1 ATGAAATG
79623340 TGAATCAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (26 bp):
ATGAAATGGATAATGCCATTGTGTAA
Found at i:79625943 original size:33 final size:32
Alignment explanation
Indices: 79625875--79625948 Score: 85
Period size: 33 Copynumber: 2.3 Consensus size: 32
79625865 TGGCCTTGCC
* *
79625875 ATGGTCTTATATTCTCATGCCATAACCTAATT
1 ATGGTCTTATATTCTCATGCCATAACCCAACT
* * * *
79625907 ATGGTCTTATTTTCTGATTGCCATAGCCCAGCT
1 ATGGTCTTATATTCTCA-TGCCATAACCCAACT
79625940 ATGGTCTTA
1 ATGGTCTTA
79625949 ATTAACAACT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
32 15 0.43
33 20 0.57
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.41
Consensus pattern (32 bp):
ATGGTCTTATATTCTCATGCCATAACCCAACT
Found at i:79636575 original size:12 final size:12
Alignment explanation
Indices: 79636537--79636575 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
79636527 GTTTATAGAC
79636537 TTTGATGAAAAT
1 TTTGATGAAAAT
* *
79636549 TTTG-GGAATAT
1 TTTGATGAAAAT
79636560 TTTGATGAAAAT
1 TTTGATGAAAAT
79636572 TTTG
1 TTTG
79636576 GACTTGGACT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (12 bp):
TTTGATGAAAAT
Found at i:79638495 original size:15 final size:15
Alignment explanation
Indices: 79638475--79638504 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
79638465 AAATATCATA
79638475 TTAATTTTAATTAAT
1 TTAATTTTAATTAAT
*
79638490 TTAATTTTACTTAAT
1 TTAATTTTAATTAAT
79638505 CAAAATCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATTTTAATTAAT
Found at i:79640025 original size:21 final size:21
Alignment explanation
Indices: 79639999--79640043 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
79639989 AAGGTTTTTG
*
79639999 TTCCCTTATCCTTATTTAATA
1 TTCCCTTATCCTGATTTAATA
79640020 TTCCCTTATCCTGATTTAATA
1 TTCCCTTATCCTGATTTAATA
79640041 TTC
1 TTC
79640044 AAAGTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.24, G:0.02, T:0.51
Consensus pattern (21 bp):
TTCCCTTATCCTGATTTAATA
Found at i:79642134 original size:21 final size:21
Alignment explanation
Indices: 79642110--79642153 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
79642100 TATAGGTATT
* * *
79642110 ATTTTGATAAATATATATTAA
1 ATTTTAATAAACATATAATAA
79642131 ATTTTAATAAACATATAATAA
1 ATTTTAATAAACATATAATAA
79642152 AT
1 AT
79642154 AATTATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTTTAATAAACATATAATAA
Found at i:79643987 original size:15 final size:15
Alignment explanation
Indices: 79643964--79643994 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
79643954 TTACACTAAC
*
79643964 TATAGTATTTAAAAA
1 TATAATATTTAAAAA
79643979 TATAATATTTAAAAA
1 TATAATATTTAAAAA
79643994 T
1 T
79643995 GAAAGGTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
TATAATATTTAAAAA
Found at i:79645909 original size:18 final size:18
Alignment explanation
Indices: 79645882--79645916 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79645872 TCATTACCCT
*
79645882 TTGCCTTTGCCATTGCCA
1 TTGCCCTTGCCATTGCCA
*
79645900 TTGCCCTTGCCCTTGCC
1 TTGCCCTTGCCATTGCC
79645917 CGCATCATCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.40, G:0.17, T:0.37
Consensus pattern (18 bp):
TTGCCCTTGCCATTGCCA
Found at i:79648781 original size:18 final size:18
Alignment explanation
Indices: 79648749--79648983 Score: 56
Period size: 20 Copynumber: 13.3 Consensus size: 18
79648739 TATATCATAC
* *
79648749 AAAAATATTTAAAAATTTT
1 AAAAATA-TAAAAAATTAT
*
79648768 AAAAATATAAAAAA-TACA
1 AAAAATATAAAAAATTA-T
*
79648786 AAAAATGTAAAAAAATTAT
1 AAAAATAT-AAAAAATTAT
* * *
79648805 AAAATTATTAAAAA-T-G
1 AAAAATATAAAAAATTAT
* *
79648821 AAAAATAT-TAAAA-TAC
1 AAAAATATAAAAAATTAT
79648837 AAAAATAT---AAATTAT
1 AAAAATATAAAAAATTAT
*
79648852 ATAAACTAT-AAAAA-TA-
1 A-AAAATATAAAAAATTAT
* * *
79648868 AAAATTATGAAATAATGTTT
1 AAAAATAT-AAAAAAT-TAT
* *
79648888 TAAAATATAGAAAATTAT
1 AAAAATATAAAAAATTAT
79648906 GAATAAAT-TAACAAAA-TAT
1 -AA-AAATATAA-AAAATTAT
* **
79648925 ---TATA-AAAAAAGCAT
1 AAAAATATAAAAAATTAT
79648939 AAAGAATATAAAAAAACTTA-
1 AAA-AATAT-AAAAAA-TTAT
79648959 AAAATATATGAAAAAATTAT
1 AAAA-ATAT-AAAAAATTAT
79648979 AAAAA
1 AAAAA
79648984 ATCTATTTCT
Statistics
Matches: 159, Mismatches: 30, Indels: 54
0.65 0.12 0.22
Matches are distributed among these distances:
13 4 0.03
14 9 0.06
15 14 0.09
16 22 0.14
17 8 0.05
18 26 0.16
19 36 0.23
20 39 0.25
21 1 0.01
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.28
Consensus pattern (18 bp):
AAAAATATAAAAAATTAT
Found at i:79648788 original size:16 final size:17
Alignment explanation
Indices: 79648745--79648847 Score: 66
Period size: 19 Copynumber: 5.9 Consensus size: 17
79648735 TAAATATATC
79648745 ATACAAAAATATTTAAAAA
1 ATACAAAAATA--TAAAAA
* **
79648764 TTTTAAAAATATAAAAA
1 ATACAAAAATATAAAAA
*
79648781 ATACAAAAAATGTAAAAAA
1 ATAC-AAAAATAT-AAAAA
* * *
79648800 ATTATAAAATTATTAAAA
1 A-TACAAAAATATAAAAA
* *
79648818 AT-GAAAAATAT-TAAA
1 ATACAAAAATATAAAAA
79648833 ATACAAAAATATAAA
1 ATACAAAAATATAAA
79648848 TTATATAAAC
Statistics
Matches: 63, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
15 5 0.08
16 15 0.24
17 9 0.14
18 12 0.19
19 20 0.32
20 2 0.03
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (17 bp):
ATACAAAAATATAAAAA
Found at i:79648808 original size:9 final size:9
Alignment explanation
Indices: 79648758--79648932 Score: 52
Period size: 10 Copynumber: 19.7 Consensus size: 9
79648748 CAAAAATATT
*
79648758 TAAAAATTT
1 TAAAAATTA
79648767 TAAAAA-TA
1 TAAAAATTA
*
79648775 TAAAAAATA
1 TAAAAATTA
*
79648784 CAAAAAATGTA
1 -TAAAAAT-TA
*
79648795 AAAAAATTA
1 TAAAAATTA
79648804 T-AAAATTA
1 TAAAAATTA
79648812 TTAAAAA-T-
1 -TAAAAATTA
*
79648820 GAAAAA-TA
1 TAAAAATTA
*
79648828 TTAAAA-TA
1 TAAAAATTA
*
79648836 CAAAAA-TA
1 TAAAAATTA
79648844 T--AAATTA
1 TAAAAATTA
* *
79648851 TATAAACTA
1 TAAAAATTA
79648860 T-AAAA--A
1 TAAAAATTA
79648866 TAAAAATTA
1 TAAAAATTA
*
79648875 TGAAATAATGTT
1 T-AAA-AAT-TA
*
79648887 TTAAAA-TA
1 TAAAAATTA
79648895 TAGAAAATTA
1 TA-AAAATTA
79648905 TGAATAAATTAA
1 T-AA-AAATT-A
*
79648917 CAAAATATTA
1 TAAAA-ATTA
79648927 TAAAAA
1 TAAAAA
79648933 AAGCATAAAG
Statistics
Matches: 127, Mismatches: 18, Indels: 42
0.68 0.10 0.22
Matches are distributed among these distances:
6 5 0.04
7 13 0.10
8 31 0.24
9 25 0.20
10 32 0.25
11 18 0.14
12 3 0.02
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:79648856 original size:24 final size:24
Alignment explanation
Indices: 79648796--79648875 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 24
79648786 AAAAATGTAA
* *
79648796 AAAAATTATA-AAATTATTAAAAAT
1 AAAAATTATATAAAATA-CAAAAAT
79648820 GAAAAA-TAT-TAAAATACAAAAAT
1 -AAAAATTATATAAAATACAAAAAT
* * *
79648843 ATAAATTATATAAACTATAAAAAT
1 AAAAATTATATAAAATACAAAAAT
79648867 AAAAATTAT
1 AAAAATTAT
79648876 GAAATAATGT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
22 4 0.09
23 9 0.20
24 28 0.61
25 5 0.11
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (24 bp):
AAAAATTATATAAAATACAAAAAT
Found at i:79648871 original size:7 final size:8
Alignment explanation
Indices: 79648767--79648871 Score: 54
Period size: 9 Copynumber: 12.6 Consensus size: 8
79648757 TTAAAAATTT
79648767 TAAAAATA
1 TAAAAATA
79648775 TAAAAAATA
1 T-AAAAATA
*
79648784 CAAAAAATGTA
1 -TAAAAA--TA
*
79648795 AAAAAATTA
1 TAAAAA-TA
*
79648804 TAAAATTA
1 TAAAAATA
79648812 TTAAAAAT-
1 -TAAAAATA
*
79648820 GAAAAATA
1 TAAAAATA
*
79648828 TTAAAATA
1 TAAAAATA
*
79648836 CAAAAATA
1 TAAAAATA
*
79648844 T-AAATTA
1 TAAAAATA
*
79648851 TATAAACTA
1 TA-AAAATA
79648860 TAAAAATA
1 TAAAAATA
79648868 -AAAA
1 TAAAA
79648872 TTATGAAATA
Statistics
Matches: 75, Mismatches: 14, Indels: 17
0.71 0.13 0.16
Matches are distributed among these distances:
7 16 0.21
8 20 0.27
9 31 0.41
10 6 0.08
11 2 0.03
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.26
Consensus pattern (8 bp):
TAAAAATA
Found at i:79648967 original size:20 final size:21
Alignment explanation
Indices: 79648918--79648983 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 21
79648908 ATAAATTAAC
79648918 AAAATATTATAAAAAAAGCATA
1 AAAATA-TATAAAAAAAGCATA
* *
79648940 AAGA-ATATAAAAAAA-CTTA
1 AAAATATATAAAAAAAGCATA
* **
79648959 AAAATATATGAAAAAATTATA
1 AAAATATATAAAAAAAGCATA
79648980 AAAA
1 AAAA
79648984 ATCTATTTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
19 6 0.17
20 20 0.56
21 7 0.19
22 3 0.08
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.23
Consensus pattern (21 bp):
AAAATATATAAAAAAAGCATA
Found at i:79649273 original size:28 final size:26
Alignment explanation
Indices: 79649230--79649293 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 26
79649220 GTAAATAATA
*
79649230 ATATTTTTTTAATTTTATATAGCTTTT
1 ATATTTTTTCAATTTTATATA-CTTTT
* *
79649257 ATATTTATTTCAATTTTTTATATTTTT
1 ATATTT-TTTCAATTTTATATACTTTT
79649284 A-ATTTTTTCA
1 ATATTTTTTCA
79649294 CCTTCTATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 5 0.15
26 4 0.12
27 11 0.33
28 13 0.39
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.67
Consensus pattern (26 bp):
ATATTTTTTCAATTTTATATACTTTT
Found at i:79649387 original size:25 final size:26
Alignment explanation
Indices: 79649330--79649387 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 26
79649320 TATGTTTTCA
79649330 TAATTTTTA-AAATTTTATTTTTTTG
1 TAATTTTTATAAATTTTATTTTTTTG
* *
79649355 TAATTTATAT-ATTTTTA-TTTTTT-
1 TAATTTTTATAAATTTTATTTTTTTG
79649378 TAATTTTTAT
1 TAATTTTTAT
79649388 GCAAAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 9 0.31
24 6 0.21
25 14 0.48
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (26 bp):
TAATTTTTATAAATTTTATTTTTTTG
Found at i:79649513 original size:19 final size:19
Alignment explanation
Indices: 79649471--79649513 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
79649461 AATTTAGCAC
* *
79649471 TTTTTTATATTTTTCATAA
1 TTTTTTAAATTTTTAATAA
*
79649490 ATTTTTAAATTTTTAAT-A
1 TTTTTTAAATTTTTAATAA
79649508 TTTTTT
1 TTTTTT
79649514 GTGATTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTTAAATTTTTAATAA
Found at i:79653906 original size:39 final size:39
Alignment explanation
Indices: 79653837--79653928 Score: 121
Period size: 39 Copynumber: 2.4 Consensus size: 39
79653827 ACCACAATGT
* * *
79653837 TATTGAGTGGCTTGACCATAACGAGAAACTTGTCTGCAA
1 TATTCAGTGGCTTGACCACAACGAGAAACTTGACTGCAA
* * *
79653876 TATTTAGTGGCTTGACCACAACGTGCAACTTGACTGCAA
1 TATTCAGTGGCTTGACCACAACGAGAAACTTGACTGCAA
*
79653915 TATACAGTGGCTTG
1 TATTCAGTGGCTTG
79653929 GCCATAATGT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (39 bp):
TATTCAGTGGCTTGACCACAACGAGAAACTTGACTGCAA
Found at i:79655868 original size:81 final size:81
Alignment explanation
Indices: 79655733--79655891 Score: 300
Period size: 81 Copynumber: 2.0 Consensus size: 81
79655723 ATATTACTGT
*
79655733 TAAGAAAGAAGTTATTCATGAGGAATCGATTTATTCAAGTATGGTATTCACAAAATGAAATTTCT
1 TAAGAAAGAAATTATTCATGAGGAATCGATTTATTCAAGTATGGTATTCACAAAATGAAATTTCT
79655798 AGAAAATTTCTTCTGA
66 AGAAAATTTCTTCTGA
79655814 TAAGAAAGAAATTATTCATGAGGAATCGATTTATTCAAGTATGGTATTCACAAAATGAAATTTCT
1 TAAGAAAGAAATTATTCATGAGGAATCGATTTATTCAAGTATGGTATTCACAAAATGAAATTTCT
*
79655879 GGAAAATTTCTTC
66 AGAAAATTTCTTC
79655892 CGAATTAGTT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.35
Consensus pattern (81 bp):
TAAGAAAGAAATTATTCATGAGGAATCGATTTATTCAAGTATGGTATTCACAAAATGAAATTTCT
AGAAAATTTCTTCTGA
Found at i:79656801 original size:125 final size:125
Alignment explanation
Indices: 79656596--79656840 Score: 393
Period size: 125 Copynumber: 2.0 Consensus size: 125
79656586 GGGAGAGTTG
* * * * *
79656596 TAATAGCTCGAATTTCAGCAATGTCGAAAATAGTGGTTCAAGACCATCAAATTCGACAAATGAAC
1 TAATAGCCCGAATTTCAACAATGTCAAAAATAGTAGTTCAAGACCATCAAATTCGAAAAATGAAC
79656661 TCGTAGATTATATTATTTAATATTTACGAGCCAAATGTAGTTTTTAAAAGATTTTGAATA
66 TCGTAGATTATATTATTTAATATTTACGAGCCAAATGTAGTTTTTAAAAGATTTTGAATA
* * *
79656721 TAATAGCCCGAATTTTAACGATGTCAAAAATAGTAGTTCGAGACCATCAAA-TCTGAAAAATGAA
1 TAATAGCCCGAATTTCAACAATGTCAAAAATAGTAGTTCAAGACCATCAAATTC-GAAAAATGAA
*
79656785 CTTGTAGATTATATTATTTAATATTTACGAGCCAAATGTAGTTTTTAAAAGATTTT
65 CTCGTAGATTATATTATTTAATATTTACGAGCCAAATGTAGTTTTTAAAAGATTTT
79656841 TGAAATAGTA
Statistics
Matches: 110, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
124 2 0.02
125 108 0.98
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (125 bp):
TAATAGCCCGAATTTCAACAATGTCAAAAATAGTAGTTCAAGACCATCAAATTCGAAAAATGAAC
TCGTAGATTATATTATTTAATATTTACGAGCCAAATGTAGTTTTTAAAAGATTTTGAATA
Found at i:79658791 original size:50 final size:50
Alignment explanation
Indices: 79658716--79658880 Score: 267
Period size: 50 Copynumber: 3.3 Consensus size: 50
79658706 GAAACCAGAA
*
79658716 ATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGAAAGTG
1 ATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAAAGTG
* *
79658766 ATAAGTAATAGCTTCGGCTACACTTATTTGATCAAGGACAAGTGAAAGTG
1 ATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAAAGTG
*
79658816 ATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGACAAGTG
1 ATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA-AAGTG
* *
79658867 AAAAGTGGTAGCTT
1 ATAAGTGATAGCTT
79658881 TGGTTACCTG
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 89 0.84
51 17 0.16
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
ATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAAAGTG
Found at i:79658901 original size:31 final size:31
Alignment explanation
Indices: 79658863--79658980 Score: 182
Period size: 31 Copynumber: 3.8 Consensus size: 31
79658853 ACAAATGACA
* *
79658863 AGTGAAAAGTGGTAGCTTTGGTTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
79658894 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
79658925 AGTGAAAAGTAGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
79658956 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
79658981 AAGTGACAAG
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:79659084 original size:47 final size:46
Alignment explanation
Indices: 79659000--79659168 Score: 131
Period size: 47 Copynumber: 3.6 Consensus size: 46
79658990 GTGATTTCCA
* * * ** * *
79659000 TATAAGACCAAATCTAGGATATGGTATTGGTGTGATATATGCTACTG
1 TATAAGACCATATCTGGGATATGGCATCAGTGCGATATATGATAC-G
* * *
79659047 TATAAGACCATATTTGGGATATGGCATCAGTGCGATATGTGATTCG
1 TATAAGACCATATCTGGGATATGGCATCAGTGCGATATATGATACG
* * * * * *
79659093 TGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACG
1 TATAAGACCATATCTGGGATATGGCATC-A-GTGCGATATATGA-TACG
* * *
79659142 TGTAAGACCATAGCTGGGCTATGGCAT
1 TATAAGACCATATCTGGGATATGGCAT
79659169 GATTATGTGA
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
46 25 0.25
47 36 0.35
48 11 0.11
49 30 0.29
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (46 bp):
TATAAGACCATATCTGGGATATGGCATCAGTGCGATATATGATACG
Found at i:79659150 original size:49 final size:48
Alignment explanation
Indices: 79659049--79659178 Score: 176
Period size: 49 Copynumber: 2.7 Consensus size: 48
79659039 TGCTACTGTA
** * * *
79659049 TAAGACCATATTTGGGATATGGCATC-A-GTGCGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
79659095 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATT-CGTG
79659144 TAAGACCATAGCTGGGCTATGGCAT-GATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGA
79659179 AGATGTGTAA
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
46 23 0.31
47 1 0.01
48 15 0.20
49 36 0.48
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
Found at i:79661389 original size:27 final size:27
Alignment explanation
Indices: 79661340--79661393 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
79661330 GCCAACAAGT
*
79661340 GAGATTTTTATATACTCCAGTTATAAA
1 GAGATTTTTATATACACCAGTTATAAA
**
79661367 GAGATTTTTATATACACTGGTTATAAA
1 GAGATTTTTATATACACCAGTTATAAA
79661394 ATCATTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (27 bp):
GAGATTTTTATATACACCAGTTATAAA
Found at i:79668032 original size:40 final size:40
Alignment explanation
Indices: 79667965--79668132 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
79667955 AAATTGAATA
* * *
79667965 ATATCCGGGCTAAG-CCCTGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCC-GAAGGCAATTGTGCTGGTAATT
* * ***
79668005 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
79668045 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
79668085 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
79668125 ATATCCGG
1 ATATCCGG
79668133 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:79673680 original size:38 final size:38
Alignment explanation
Indices: 79673629--79673713 Score: 127
Period size: 38 Copynumber: 2.2 Consensus size: 38
79673619 GTAAAAGAAG
* *
79673629 AAATCCGGACTTAAAGTCCGCAGGCTATA-TGCTGGAAT
1 AAATCCGGACTTAAAGTCCACAGGCTA-AGTGCTGGAAA
79673667 AAATCCGGACTTAAAGTCCACAGGCTAAGTGCTGGAAA
1 AAATCCGGACTTAAAGTCCACAGGCTAAGTGCTGGAAA
79673705 AATATCCGG
1 AA-ATCCGG
79673714 GTTAAGGACC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 1 0.02
38 36 0.84
39 6 0.14
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (38 bp):
AAATCCGGACTTAAAGTCCACAGGCTAAGTGCTGGAAA
Found at i:79682296 original size:40 final size:40
Alignment explanation
Indices: 79682230--79682396 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
79682220 AAATTGAATG
* * *
79682230 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
79682269 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
79682309 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
79682349 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
79682389 ATATCCGG
1 ATATCCGG
79682397 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:79684147 original size:38 final size:38
Alignment explanation
Indices: 79684096--79684180 Score: 127
Period size: 38 Copynumber: 2.2 Consensus size: 38
79684086 GTAAAAGAAG
* *
79684096 AAATCCGGACTTAAAGTCCGCAGGCTATA-TGCTGGAAT
1 AAATCCGGACTTAAAGTCCACAGGCTA-AGTGCTGGAAA
79684134 AAATCCGGACTTAAAGTCCACAGGCTAAGTGCTGGAAA
1 AAATCCGGACTTAAAGTCCACAGGCTAAGTGCTGGAAA
79684172 AATATCCGG
1 AA-ATCCGG
79684181 GTTAAGGACC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 1 0.02
38 36 0.84
39 6 0.14
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (38 bp):
AAATCCGGACTTAAAGTCCACAGGCTAAGTGCTGGAAA
Found at i:79688835 original size:71 final size:70
Alignment explanation
Indices: 79688747--79688909 Score: 317
Period size: 71 Copynumber: 2.3 Consensus size: 70
79688737 GAGATGTATC
79688747 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTG-
79688812 AGGACA
65 AGGACA
79688818 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
79688883 GGACA
66 GGACA
79688888 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
79688910 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 28 0.30
71 64 0.70
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (70 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
GGACA
Found at i:79696431 original size:70 final size:71
Alignment explanation
Indices: 79696280--79696442 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
79696270 GAGATGTATC
79696280 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
79696345 AGGACA
66 AGGACA
79696351 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
79696415 CGGACA
66 AGGACA
79696421 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
79696443 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:79701357 original size:28 final size:27
Alignment explanation
Indices: 79701294--79701363 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
79701284 ATAGTGAGTC
79701294 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
79701321 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
79701349 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
79701364 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:79705324 original size:48 final size:48
Alignment explanation
Indices: 79705250--79705426 Score: 223
Period size: 48 Copynumber: 3.7 Consensus size: 48
79705240 TGATATGTGT
* *
79705250 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGA
* *
79705298 GCCAGTGTAAGACCATGTCTGGGACATGACATCAGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGA
* * * * * *
79705346 GCTAGTGTAAGGCCATGTCTAGGACATGGCATCAG-TA-TTGATATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAT--TATGAGA
*
79705394 GCTAGTGTAAGACCATGTTTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
79705427 GAAAATTTTA
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 110 0.98
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGA
Found at i:79708537 original size:27 final size:26
Alignment explanation
Indices: 79708499--79708630 Score: 140
Period size: 27 Copynumber: 4.9 Consensus size: 26
79708489 GCGAGGCTGC
* *
79708499 CAGATATTGTGAC-GAGGTCACTAGATA
1 CAGATATTGTGACAGA-GCCACCAGA-A
79708526 CAGATATTGTGACAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAA
* *
79708552 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGACAGAGCCACCAGAA
* * *
79708579 CAGATAATTGTGGCATAGCCACCAGGA
1 CAGAT-ATTGTGACAGAGCCACCAGAA
*
79708606 CAGATATATGTGGCAGAGCCACCAG
1 CAGATAT-TGTGACAGAGCCACCAG
79708631 GACGCTTCCT
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
26 10 0.11
27 79 0.85
28 4 0.04
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACAGAGCCACCAGAA
Found at i:79708601 original size:54 final size:54
Alignment explanation
Indices: 79708521--79708630 Score: 177
Period size: 54 Copynumber: 2.0 Consensus size: 54
79708511 CGAGGTCACT
79708521 AGATACAGATATTGTGACAGAGCCACCAGAACAGATATATGTGGCAGAGCCACC
1 AGATACAGATATTGTGACAGAGCCACCAGAACAGATATATGTGGCAGAGCCACC
* * *
79708575 AGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACC
1 AGATACAGAT-ATTGTGACAGAGCCACCAGAACAGATATATGTGGCAGAGCCACC
79708629 AG
1 AG
79708631 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
53 5 0.10
54 47 0.90
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.17
Consensus pattern (54 bp):
AGATACAGATATTGTGACAGAGCCACCAGAACAGATATATGTGGCAGAGCCACC
Found at i:79708631 original size:27 final size:27
Alignment explanation
Indices: 79708525--79708633 Score: 152
Period size: 27 Copynumber: 4.1 Consensus size: 27
79708515 GTCACTAGAT
* *
79708525 ACAGATAT-TGTGACAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGG
79708551 ACAGATATATGTGGCAGAGCCACCA-G
1 ACAGATATATGTGGCAGAGCCACCAGG
*
79708577 ATCAGATA-ATTGTGGCATAGCCACCAGG
1 A-CAGATATA-TGTGGCAGAGCCACCAGG
79708605 ACAGATATATGTGGCAGAGCCACCAGG
1 ACAGATATATGTGGCAGAGCCACCAGG
79708632 AC
1 AC
79708634 GCTTCCTCCA
Statistics
Matches: 74, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
26 10 0.14
27 61 0.82
28 3 0.04
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.17
Consensus pattern (27 bp):
ACAGATATATGTGGCAGAGCCACCAGG
Found at i:79709600 original size:33 final size:33
Alignment explanation
Indices: 79709554--79709627 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
79709544 TATGTTCTCA
*
79709554 TTTATTTC-ATTTGAAACTAGACTCATTAAGCT
1 TTTATTACAATTTGAAACTAGACTCATTAAGCT
79709586 TTTATTACAATTTGAAACTAGACTCATTAAGCT
1 TTTATTACAATTTGAAACTAGACTCATTAAGCT
*
79709619 TTAATTACA
1 TTTATTACA
79709628 TAATTTACTC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 7 0.18
33 32 0.82
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (33 bp):
TTTATTACAATTTGAAACTAGACTCATTAAGCT
Found at i:79710292 original size:26 final size:26
Alignment explanation
Indices: 79710262--79710369 Score: 216
Period size: 26 Copynumber: 4.2 Consensus size: 26
79710252 TGAAATTCCC
79710262 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
79710288 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
79710314 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
79710340 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
79710366 ATCA
1 ATCA
79710370 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:79715654 original size:27 final size:27
Alignment explanation
Indices: 79715616--79715774 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
79715606 GCGAGGCTAC
*
79715616 CAGATATTGTGAC-GAGGTCACCAGATA
1 CAGATATTGTGACAGA-GCCACCAGATA
79715643 CAGATATTGTGACAGAGCCACCAGA-A
1 CAGATATTGTGACAGAGCCACCAGATA
*
79715669 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGACAGAGCCACCAGATA
* * *
79715696 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGACAGAGCCACCAGATA
*
79715723 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGACAGAGCCACCAGATA
* *
79715750 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGACAGAGCCACCAG
79715775 GACGCTTCCT
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 101 0.86
28 6 0.05
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGACAGAGCCACCAGATA
Found at i:79715775 original size:54 final size:54
Alignment explanation
Indices: 79715634--79715777 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
79715624 GTGACGAGGT
* * *
79715634 CACCAGATACAGAT-ATTGTGACAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
79715688 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
79715742 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
79715778 GCTTCCTCCA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 81 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:79716687 original size:26 final size:26
Alignment explanation
Indices: 79716648--79716807 Score: 266
Period size: 26 Copynumber: 6.2 Consensus size: 26
79716638 TGAAATTCTC
* * *
79716648 ATCATAGAATATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
79716674 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
79716700 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
79716726 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
79716752 ATCATGGAACATTTACCTAACCTATA
1 ATCATGGAACATTTACCTAACCCATT
79716778 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
79716804 ATCA
1 ATCA
79716808 ATTTGTATCA
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 125 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:79720011 original size:40 final size:40
Alignment explanation
Indices: 79719923--79720106 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
79719913 TCGAATGATG
* * * *
79719923 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* *
79719963 TCCAGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* * * *
79720003 TCCGGACTAAGAT-CCAAATGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
79720043 TCCGGGTTAAGTCCCGAAGGCA-TCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTC-GTGCGAGTTACTA-AA
*
79720084 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
79720107 TGAATGAGTA
Statistics
Matches: 121, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 109 0.90
41 10 0.08
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:79728884 original size:40 final size:40
Alignment explanation
Indices: 79728831--79728993 Score: 229
Period size: 40 Copynumber: 4.1 Consensus size: 40
79728821 CGGGATTTAG
*
79728831 CGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
79728871 CGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* * * * *
79728911 CGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCC
1 CGGATAT-AGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* * *
79728951 CGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTC
1 CGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
79728991 CGG
1 CGG
79728994 TTATCATCCG
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.02
40 103 0.96
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
Found at i:79736902 original size:40 final size:40
Alignment explanation
Indices: 79736835--79737011 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
79736825 ACCCAAGTAT
*
79736835 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
79736874 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
79736914 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
79736954 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
79736994 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
79737012 TTATCATCCG
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 104 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:79739116 original size:26 final size:25
Alignment explanation
Indices: 79739060--79739120 Score: 86
Period size: 26 Copynumber: 2.4 Consensus size: 25
79739050 CATAATTTTC
*
79739060 TCAAAATTTTATCGGGGTAAAATTG
1 TCAAAATTTTATCGGGGTAAAATCG
* *
79739085 TAAAAATTTTATCGGCGGTGAAATCG
1 TCAAAATTTTATCGG-GGTAAAATCG
79739111 TCAAAATTTT
1 TCAAAATTTT
79739121 CATGGAGGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 14 0.45
26 17 0.55
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (25 bp):
TCAAAATTTTATCGGGGTAAAATCG
Found at i:79739556 original size:30 final size:30
Alignment explanation
Indices: 79739522--79739644 Score: 156
Period size: 30 Copynumber: 4.1 Consensus size: 30
79739512 GGTCACATGC
* **
79739522 CCATGTGAACAGGCCATGTGCCTCACATTA
1 CCATGTGAACAGGCCGTGTGCCTCACACGA
* *
79739552 CCATGTGAATAGGCCGTGTGCCTTACACGA
1 CCATGTGAACAGGCCGTGTGCCTCACACGA
* *
79739582 TCGTGTGAACAGGCCGTGTGCCTCACACGA
1 CCATGTGAACAGGCCGTGTGCCTCACACGA
* * *
79739612 CCGTGTGAACAAGCCGTGTACCTCACACGA
1 CCATGTGAACAGGCCGTGTGCCTCACACGA
79739642 CCA
1 CCA
79739645 CTAGACACGT
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 80 1.00
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.20
Consensus pattern (30 bp):
CCATGTGAACAGGCCGTGTGCCTCACACGA
Found at i:79740928 original size:47 final size:47
Alignment explanation
Indices: 79740808--79740928 Score: 127
Period size: 47 Copynumber: 2.6 Consensus size: 47
79740798 AATCGATAAG
* * *
79740808 TACCTATACCATGGCTCGTAGCCAAATCAAGGTAACTTATCCCGAAG
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCAAAA
** * * **
79740855 TACCTATACCATGGCCTATAGTCAAATCAAGGTAA-TTCCTTTCAAAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTT-ATCCCAAAA
* *
79740902 TTCCTATATCATGGCCCGTAGCCAAAT
1 TACCTATACCATGGCCCGTAGCCAAAT
79740929 AAAGATATTA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
46 2 0.03
47 57 0.97
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.27
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCAAAA
Found at i:79745441 original size:24 final size:24
Alignment explanation
Indices: 79745414--79745465 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
79745404 CATTATCACT
* **
79745414 ATCATCATAGTTTGCACTATTACA
1 ATCATCATAGCTCACACTATTACA
*
79745438 ATCATCATAGCTCACATTATTACA
1 ATCATCATAGCTCACACTATTACA
79745462 ATCA
1 ATCA
79745466 AATTCTTCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.35
Consensus pattern (24 bp):
ATCATCATAGCTCACACTATTACA
Found at i:79747679 original size:76 final size:76
Alignment explanation
Indices: 79747533--79747679 Score: 260
Period size: 76 Copynumber: 1.9 Consensus size: 76
79747523 CAAGCATTTT
79747533 TTGTGCATTGCATACGGCTTTACAATAGAATTCTATTTTTTCTTTCACTGAAAAAAGAAAAAGAG
1 TTGTGCATTGCATACGGCTTTACAATAGAATTCTATTTTTTCTTTCACTGAAAAAAGAAAAAGAG
*
79747598 GAAATAAATGC
66 AAAATAAATGC
*
79747609 TTGTGCATTGCATACGGCTTTACAAT-GCAATTCTATTTTTTCTTTCACTGAAAAAAGAAAAAGT
1 TTGTGCATTGCATACGGCTTTACAATAG-AATTCTATTTTTTCTTTCACTGAAAAAAGAAAAAGA
79747673 GAAAATA
65 GAAAATA
79747680 TAAAGAGCAT
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
75 1 0.01
76 67 0.99
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (76 bp):
TTGTGCATTGCATACGGCTTTACAATAGAATTCTATTTTTTCTTTCACTGAAAAAAGAAAAAGAG
AAAATAAATGC
Found at i:79747912 original size:12 final size:12
Alignment explanation
Indices: 79747895--79747919 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
79747885 ATTTTATAAC
79747895 ATAAATATTGTT
1 ATAAATATTGTT
79747907 ATAAATATTGTT
1 ATAAATATTGTT
79747919 A
1 A
79747920 ATAGCCTCTA
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:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:79749980 original size:44 final size:46
Alignment explanation
Indices: 79749913--79750001 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
79749903 AATTGTAATG
79749913 GAATAGAGCTATAATCAGTAATTCAAT-TGTTTGATTGAATGGAATT
1 GAATAGAGCTATAATCAGTAATTC-ATGTGTTTGATTGAATGGAATT
* *
79749959 GAATAGAGCTGTAAT-AG-AATTCATGTGTTTGGTTGAATGGAAT
1 GAATAGAGCTATAATCAGTAATTCATGTGTTTGATTGAATGGAAT
79750002 AAATGTTGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 2 0.05
44 22 0.55
45 2 0.05
46 14 0.35
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (46 bp):
GAATAGAGCTATAATCAGTAATTCATGTGTTTGATTGAATGGAATT
Found at i:79750242 original size:13 final size:12
Alignment explanation
Indices: 79750188--79750250 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
79750178 TTTAATAAAA
79750188 TAATATATAA-TT
1 TAATA-ATAATTT
*
79750200 TAAT-ATCATTCT
1 TAATAATAATT-T
79750212 TAAT-ATAATTAT
1 TAATAATAATT-T
79750224 TAATAAT-A-TT
1 TAATAATAATTT
79750234 TAATAATAATTT
1 TAATAATAATTT
79750246 TAATA
1 TAATA
79750251 TAAAATTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
10 11 0.26
11 3 0.07
12 27 0.63
13 2 0.05
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (12 bp):
TAATAATAATTT
Found at i:79750546 original size:21 final size:21
Alignment explanation
Indices: 79750519--79750564 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
79750509 CTTTTGGTGA
*
79750519 AATAAAAAATTTC-AAATTTT
1 AATAAAAAATTACTAAATTTT
79750539 ACAT-AAAAATTACTAAATTTT
1 A-ATAAAAAATTACTAAATTTT
79750560 AATAA
1 AATAA
79750565 CATTAGTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
AATAAAAAATTACTAAATTTT
Found at i:79753259 original size:27 final size:29
Alignment explanation
Indices: 79753224--79753281 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 29
79753214 AAAAAATCAA
*
79753224 GGAAGAGGAAAAG-AAGAAGAAATTATAG
1 GGAAGAGGAAAAGAAAGAAGAAATTACAG
79753252 GGAA-AGGAAAAGAAAGAAGAAATTACAG
1 GGAAGAGGAAAAGAAAGAAGAAATTACAG
79753280 GG
1 GG
79753282 TATTGGTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.57, C:0.02, G:0.33, T:0.09
Consensus pattern (29 bp):
GGAAGAGGAAAAGAAAGAAGAAATTACAG
Found at i:79754660 original size:113 final size:114
Alignment explanation
Indices: 79754437--79754663 Score: 429
Period size: 114 Copynumber: 2.0 Consensus size: 114
79754427 GATTCTCGGC
*
79754437 TGATACAGTGATTTTTCGTTTCTTTTCTTTTTTCTTTCGAGTGAAAAATAAAAAATGTTAACTGC
1 TGATACAGTGATTTTTCGTTTCTTTTCTTCTTTCTTTCGAGTGAAAAATAAAAAATGTTAACTGC
79754502 CAAGTAGGAAGCTACAATTGGACAACGTTTTGACGTCCAGTTAGAGACA
66 CAAGTAGGAAGCTACAATTGGACAACGTTTTGACGTCCAGTTAGAGACA
79754551 TGATACAGTGATTTTTCGTTTCTTTTCTTCTTTCTTTCGAGTGAAAAATAAAAAATG-TAACTGC
1 TGATACAGTGATTTTTCGTTTCTTTTCTTCTTTCTTTCGAGTGAAAAATAAAAAATGTTAACTGC
*
79754615 CAAGTAGGAAGCTACAATTGGACAACGTTTTGACGTTCAGTTAGAGACA
66 CAAGTAGGAAGCTACAATTGGACAACGTTTTGACGTCCAGTTAGAGACA
79754664 GTGCCATTTT
Statistics
Matches: 111, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
113 55 0.50
114 56 0.50
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.36
Consensus pattern (114 bp):
TGATACAGTGATTTTTCGTTTCTTTTCTTCTTTCTTTCGAGTGAAAAATAAAAAATGTTAACTGC
CAAGTAGGAAGCTACAATTGGACAACGTTTTGACGTCCAGTTAGAGACA
Found at i:79754685 original size:113 final size:113
Alignment explanation
Indices: 79754441--79754663 Score: 412
Period size: 113 Copynumber: 2.0 Consensus size: 113
79754431 CTCGGCTGAT
*
79754441 ACAGTGATTTTTCGTTTCTTTTCTTTTTTCTTTCGAGTGAAAAATAAAAAATGTTAACTGCCAAG
1 ACAGTGATTTTTCGTTTCTTTTCTTCTTTCTTTCGAGTGAAAAATAAAAAATGTTAACTGCCAAG
79754506 TAGGAAGCTACAATTGGACAACGTTTTGACGTCCAGTTAGAGACATGA
66 TAGGAAGCTACAATTGGACAACGTTTTGACGTCCAGTTAGAGACATGA
79754554 TACAGTGATTTTTCGTTTCTTTTCTTCTTTCTTTCGAGTGAAAAATAAAAAATG-TAACTGCCAA
1 -ACAGTGATTTTTCGTTTCTTTTCTTCTTTCTTTCGAGTGAAAAATAAAAAATGTTAACTGCCAA
*
79754618 GTAGGAAGCTACAATTGGACAACGTTTTGACGTTCAGTTAGAGACA
65 GTAGGAAGCTACAATTGGACAACGTTTTGACGTCCAGTTAGAGACA
79754664 GTGCCATTTT
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
113 55 0.51
114 52 0.49
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (113 bp):
ACAGTGATTTTTCGTTTCTTTTCTTCTTTCTTTCGAGTGAAAAATAAAAAATGTTAACTGCCAAG
TAGGAAGCTACAATTGGACAACGTTTTGACGTCCAGTTAGAGACATGA
Found at i:79759541 original size:2 final size:2
Alignment explanation
Indices: 79759534--79759616 Score: 130
Period size: 2 Copynumber: 41.5 Consensus size: 2
79759524 GAGTGTAAGA
* * *
79759534 AG AG AG AG AG AG AG AG AG TG AG AG AG TG AG AG AG TG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
79759576 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
79759617 TAGTGTGTGA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.46, C:0.00, G:0.51, T:0.04
Consensus pattern (2 bp):
AG
Found at i:79761443 original size:40 final size:40
Alignment explanation
Indices: 79761324--79761469 Score: 122
Period size: 40 Copynumber: 3.7 Consensus size: 40
79761314 TGATGTCTGC
* *
79761324 GCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACCATAT-CGG
1 GCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACCAAATCCGG
* * *
79761363 ACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAATCCGG
1 GCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAATCCGG
* **
79761403 GTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA-CCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGCTACCA-AATCCGG
* * *
79761443 GCTATGTCCCGAAGGCTTTTGAGCGAG
1 GCTAAGTCCCGAAGGCATTTGTGCGAG
79761470 TCGCTATAAC
Statistics
Matches: 87, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
39 21 0.24
40 64 0.74
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAATCCGG
Found at i:79761478 original size:40 final size:40
Alignment explanation
Indices: 79761371--79761482 Score: 102
Period size: 40 Copynumber: 2.8 Consensus size: 40
79761361 GGACTAAGAT
* * * * *
79761371 CCGAAGGCATTTGTGCGAGTTCCCA-AATCCGGGTTAAGTC
1 CCGAAGGCATTTGAGCGAGCTACTATAA-CCGGGCTAAGTC
* * *
79761411 CCGAAGGCATTTGTGCGAGCTATTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAGCGAGCTACTATAACCGGGCTAAGTC
* *
79761451 CCGAAGGCTTTTGAGCGAG-TCGCTATAACCGG
1 CCGAAGGCATTTGAGCGAGCT-ACTATAACCGG
79761483 ATAAAATCCG
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.02
40 57 0.95
41 2 0.03
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGAGCGAGCTACTATAACCGGGCTAAGTC
Found at i:79769441 original size:40 final size:40
Alignment explanation
Indices: 79769358--79769510 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
79769348 TCGAATGATG
* *
79769358 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
79769398 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
79769438 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
79769479 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
79769511 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:79771075 original size:41 final size:41
Alignment explanation
Indices: 79771008--79771240 Score: 240
Period size: 41 Copynumber: 5.7 Consensus size: 41
79770998 TTGAGTCCAA
* * *
79771008 CAGGCTTCATGCCGATGCATTTTATCAGACTTTATGCCTAG
1 CAGGCTTCATGCCGATGTATTATATCAGGCTTTATGCCTAG
* *
79771049 TAGGCTTCATGCTGATGTATTATATCAGGCTTTATGCCTAG
1 CAGGCTTCATGCCGATGTATTATATCAGGCTTTATGCCTAG
* * **
79771090 TAGGCTTCTTGCC-AGTGTATTATATCAGGCTTTGCGCCTAG
1 CAGGCTTCATGCCGA-TGTATTATATCAGGCTTTATGCCTAG
* * *
79771131 CAGACTTCGTGCCGATGTATTATATCAGGCTTTGTGCCTAG
1 CAGGCTTCATGCCGATGTATTATATCAGGCTTTATGCCTAG
* * * * *
79771172 CAGGCTTCGTGTCGATGTGTTATATCAGGTTTTGA-GTCTAG
1 CAGGCTTCATGCCGATGTATTATATCAGGCTTT-ATGCCTAG
* *
79771213 CA-GCTTCGTGCC-AGTGTATTGTATCAGG
1 CAGGCTTCATGCCGA-TGTATTATATCAGG
79771241 TAAGTTGTAC
Statistics
Matches: 166, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 22 0.13
41 142 0.86
42 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.36
Consensus pattern (41 bp):
CAGGCTTCATGCCGATGTATTATATCAGGCTTTATGCCTAG
Found at i:79783898 original size:55 final size:55
Alignment explanation
Indices: 79783774--79783919 Score: 168
Period size: 55 Copynumber: 2.7 Consensus size: 55
79783764 CGTGCGACAT
* * * * **
79783774 AACCGTGGGTGAACCTGCCAAAACAACACGGGCATGCGCCATGCCCATGCCTTGA
1 AACCGTGGGCGAACCTGCCAAAACAACACGGGCGTGCGACACGCCCATGCCAAGA
* * ** * *
79783829 AACTGT-GGCTGAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCAAGC
1 AACCGTGGGC-GAACCTGCCAAAACAACACGGGCGTGCGACACGCCCATGCCAAGA
79783884 AACCGTGGGCGAACCTGCCAAAACAACACGGGCGTG
1 AACCGTGGGCGAACCTGCCAAAACAACACGGGCGTG
79783920 GACCTTCATA
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
54 2 0.03
55 68 0.93
56 3 0.04
ACGTcount: A:0.27, C:0.32, G:0.27, T:0.14
Consensus pattern (55 bp):
AACCGTGGGCGAACCTGCCAAAACAACACGGGCGTGCGACACGCCCATGCCAAGA
Found at i:79798283 original size:20 final size:20
Alignment explanation
Indices: 79798258--79798297 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
79798248 GCTTGTACGG
*
79798258 GTTTGCACTTTGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
79798278 GTTTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
79798298 CATCACACAT
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:0.05, C:0.28, G:0.25, T:0.42
Consensus pattern (20 bp):
GTTTGCACTTCGGTGCCTCT
Found at i:79811117 original size:69 final size:70
Alignment explanation
Indices: 79810942--79811117 Score: 230
Period size: 70 Copynumber: 2.5 Consensus size: 70
79810932 TGGTTAACGG
* * *
79810942 GAGTTAAAAGCTCCCAACTGTCATTCTAAGGCTTGCAGGTTCAATACCACAACCCTCAAACAGTT
1 GAGTTAAAAGCTCCCAACTTTCATTCTAAGGCTCGCAAGTTCAATACCACAACCCTCAAACAGTT
79811007 AGCAA
66 AGCAA
* * * * *
79811012 GAGTTAAAAGCTCCCAACTATT-ATTCTAATGTTCGCAAGTTCAATACCGCAGCCC-CAAATAGT
1 GAGTTAAAAGCTCCCAACT-TTCATTCTAAGGCTCGCAAGTTCAATACCACAACCCTCAAACAGT
*
79811075 TAGCGA
65 TAGCAA
* *
79811081 TAGTTAAAAGCTCCCAACTTTCATTTTAAGGCTCGCA
1 GAGTTAAAAGCTCCCAACTTTCATTCTAAGGCTCGCA
79811118 GGTTTAACAT
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
68 2 0.02
69 42 0.46
70 46 0.51
71 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (70 bp):
GAGTTAAAAGCTCCCAACTTTCATTCTAAGGCTCGCAAGTTCAATACCACAACCCTCAAACAGTT
AGCAA
Found at i:79817717 original size:23 final size:22
Alignment explanation
Indices: 79817682--79817748 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
79817672 AGTATTATTA
* *
79817682 AAAATATATATATTTAAAATTT
1 AAAATAAAAATATTTAAAATTT
*
79817704 AAGAATAAAAATA-TTACAATATT
1 AA-AATAAAAATATTTAAAAT-TT
* * *
79817727 AATATAAAAACATTTAATATTT
1 AAAATAAAAATATTTAAAATTT
79817749 TTTTTAACCA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
22 18 0.51
23 17 0.49
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (22 bp):
AAAATAAAAATATTTAAAATTT
Found at i:79821267 original size:47 final size:47
Alignment explanation
Indices: 79821198--79821294 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
79821188 GCCATCTCAA
79821198 ATTAATATAGCAATGAGATTAAAATTAATTTTAAAATTTATATTCAG
1 ATTAATATAGCAATGAGATTAAAATTAATTTTAAAATTTATATTCAG
79821245 ATTAATATAGCAATGAGATTAAAATTAATTTTAAAATTTATATTCAG
1 ATTAATATAGCAATGAGATTAAAATTAATTTTAAAATTTATATTCAG
79821292 ATT
1 ATT
79821295 TAAACAAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.41
Consensus pattern (47 bp):
ATTAATATAGCAATGAGATTAAAATTAATTTTAAAATTTATATTCAG
Found at i:79821321 original size:47 final size:46
Alignment explanation
Indices: 79821198--79821310 Score: 131
Period size: 47 Copynumber: 2.4 Consensus size: 46
79821188 GCCATCTCAA
* * *
79821198 ATTAATATAGCAATGAGATTAAAATTAATTTTAAAATTTATATTCAG
1 ATTAATACA-CAATAAGATGAAAATTAATTTTAAAATTTATATTCAG
* * *
79821245 ATTAATATAGCAATGAGATTAAAATTAATTTTAAAATTTATATTCAG
1 ATTAATACA-CAATAAGATGAAAATTAATTTTAAAATTTATATTCAG
79821292 ATTTAA-ACA-AATAAGATGA
1 A-TTAATACACAATAAGATGA
79821311 GAAAAATAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
45 8 0.13
47 50 0.81
48 4 0.06
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (46 bp):
ATTAATACACAATAAGATGAAAATTAATTTTAAAATTTATATTCAG
Found at i:79821850 original size:20 final size:20
Alignment explanation
Indices: 79821808--79821864 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
79821798 AAATGCAGAA
* *
79821808 TTAAGTCTCGAGACTT-GACC
1 TTAAGTCTCAAGACTTAG-TC
* * *
79821828 TTAGGTGTCAATACTTAGTC
1 TTAAGTCTCAAGACTTAGTC
79821848 TTAAGTCTCAAGACTTA
1 TTAAGTCTCAAGACTTA
79821865 AGCCTAAGTT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (20 bp):
TTAAGTCTCAAGACTTAGTC
Found at i:79825277 original size:40 final size:40
Alignment explanation
Indices: 79825218--79825435 Score: 287
Period size: 40 Copynumber: 5.5 Consensus size: 40
79825208 GGATTGATAA
*
79825218 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
79825258 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* *
79825298 CCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
** * * * *
79825338 CAAGGCTATGTCTCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * *
79825378 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTA-CTATAT
* *
79825418 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
79825436 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 15 0.09
40 145 0.91
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
Found at i:79828427 original size:21 final size:21
Alignment explanation
Indices: 79828403--79828473 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
79828393 CCACACGAGA
79828403 GTGTGCCTCAGTCACACTGGT
1 GTGTGCCTCAGTCACACTGGT
** *
79828424 GTGTGCCTCTTTTCACACTGGC
1 GTGTGCCTC-AGTCACACTGGT
*
79828446 GTGTGCCTCAGCCACAC-GGCT
1 GTGTGCCTCAGTCACACTGG-T
79828467 GTGTGCC
1 GTGTGCC
79828474 CCTCTTCACA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
20 2 0.05
21 21 0.51
22 18 0.44
ACGTcount: A:0.11, C:0.32, G:0.28, T:0.28
Consensus pattern (21 bp):
GTGTGCCTCAGTCACACTGGT
Found at i:79828455 original size:43 final size:43
Alignment explanation
Indices: 79828394--79828495 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
79828384 GTCCCTGGTC
* * * * *
79828394 CACACGAGAGTGTGCCTCAGTCACACTGG-TGTGTGCCTCTTTT
1 CACACGGGCGTGTGCCTCAGCCACAC-GGCTGTGTGCCCCTCTT
*
79828437 CACACTGGCGTGTGCCTCAGCCACACGGCTGTGTGCCCCTCTT
1 CACACGGGCGTGTGCCTCAGCCACACGGCTGTGTGCCCCTCTT
*
79828480 CACACGGGCGTTTGCC
1 CACACGGGCGTGTGCC
79828496 CTCCCACATG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
42 2 0.04
43 48 0.96
ACGTcount: A:0.14, C:0.34, G:0.26, T:0.25
Consensus pattern (43 bp):
CACACGGGCGTGTGCCTCAGCCACACGGCTGTGTGCCCCTCTT
Found at i:79838143 original size:19 final size:19
Alignment explanation
Indices: 79838121--79838179 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
79838111 TAGAATAGAA
79838121 TAACTTATTTATTATAAAG
1 TAACTTATTTATTATAAAG
* *
79838140 TAAC-T-CTGA--ATAGAA-
1 TAACTTATTTATTATA-AAG
79838155 TAACTTATTTATTATAAAG
1 TAACTTATTTATTATAAAG
79838174 TAACTT
1 TAACTT
79838180 TGACGAGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
15 7 0.23
16 3 0.10
17 4 0.13
18 3 0.10
19 13 0.43
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (19 bp):
TAACTTATTTATTATAAAG
Found at i:79838151 original size:34 final size:34
Alignment explanation
Indices: 79838113--79838178 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
79838103 AACTAACTTA
79838113 GAATAGAATAACTTATTTATTATAAAGTAACTCT
1 GAATAGAATAACTTATTTATTATAAAGTAACTCT
79838147 GAATAGAATAACTTATTTATTATAAAGTAACT
1 GAATAGAATAACTTATTTATTATAAAGTAACT
79838179 TTGACGAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (34 bp):
GAATAGAATAACTTATTTATTATAAAGTAACTCT
Found at i:79838189 original size:34 final size:34
Alignment explanation
Indices: 79838117--79838189 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
79838107 AACTTAGAAT
*
79838117 AGAATAACTTATTTATTATAAAGTAACTCTGAAT
1 AGAATAACTTATTTATTATAAAGTAACTCTGAAG
* *
79838151 AGAATAACTTATTTATTATAAAGTAACTTTGACG
1 AGAATAACTTATTTATTATAAAGTAACTCTGAAG
79838185 AGAAT
1 AGAAT
79838190 GACATTATAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (34 bp):
AGAATAACTTATTTATTATAAAGTAACTCTGAAG
Found at i:79838551 original size:73 final size:70
Alignment explanation
Indices: 79838437--79838752 Score: 170
Period size: 73 Copynumber: 4.4 Consensus size: 70
79838427 GAGATAGACT
* * * * ** *
79838437 CGTCTAAAGCAACCTTAAAAAAGCT-GAGATAGACCTGTCT-AAGACAACCCTAAAAAGGTTGGG
1 CGTCTAAGGCAACCTTAAAAAGGTTGGA-ATAAAATTGTCTAAAG-CAACCCTAAAAAAGTTGGG
79838500 AAAAACC
64 AAAAACC
* * **
79838507 TTGTCTAAGGCATCCTTTGAAAAAGGTTGGAATAAAATTGTCTAAAGCAACTTTAAAAAAGTTGG
1 -CGTCTAAGGCAACC-TT-AAAAAGGTTGGAATAAAATTGTCTAAAGCAACCCTAAAAAAGTTGG
* *
79838572 GATAGACC
63 GAAAAACC
*** * * ** *
79838580 CGTCTAAGGCAACCTTAAAAAGGTTAGG-ATAGTCCTTGTATAAGGCAACATTTAAAAAACATTG
1 CGTCTAAGGCAACCTTAAAAAGGTT-GGAATA-AAATTGTCTAAAGCAAC-CCTAAAAAA-GTTG
* * *
79838644 GGATAGACT
62 GGAAAAACC
* * ** * *
79838653 CGTCTAAAGCAACCTTAAAAAGGTTGGTATAGACCTTGTCTAAGGCAACCTTTAAAAAATGTTGG
1 CGTCTAAGGCAACCTTAAAAAGGTTGGAATA-AAATTGTCTAAAGCAACC-CTAAAAAA-GTTGG
* * *
79838718 GATAGATCT
63 GA-AAAACC
**
79838727 TATCTAAGGCAACCTTTAAAAAGGTT
1 CGTCTAAGGCAACC-TTAAAAAGGTT
79838753 AGGATAGAAC
Statistics
Matches: 198, Mismatches: 35, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
70 12 0.06
71 27 0.14
72 25 0.13
73 105 0.53
74 18 0.09
75 11 0.06
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (70 bp):
CGTCTAAGGCAACCTTAAAAAGGTTGGAATAAAATTGTCTAAAGCAACCCTAAAAAAGTTGGGAA
AAACC
Found at i:79838576 original size:108 final size:106
Alignment explanation
Indices: 79838412--79838831 Score: 419
Period size: 108 Copynumber: 3.9 Consensus size: 106
79838402 TCAAGGCTGG
* * * *
79838412 CCTTTAAAAAATGTTGAGATAGACTCGTCTAAAGCAACCTTAAAAAAGCTGAGATAGACCTGTCT
1 CCTTT-AAAAAGGTTG-GATAGAATCGTCTAAAGCAACCTTAAAAAAGTTGGGATAGACCTGTCT
* * * *
79838477 AAGACAACCCTAAAAAGGTTGGGAAAAACCTTGTCTAAGGCAT
64 AAGACAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAA
* * * *
79838520 CCTTTGAAAAAGGTTGGAATAAAATTGTCTAAAGCAACTTTAAAAAAGTTGGGATAGACCCGTCT
1 CCTTT-AAAAAGGTTGG-ATAGAATCGTCTAAAGCAACCTTAAAAAAGTTGGGATAGACCTGTCT
* * * *
79838585 AAGGCAACCTTAAAAAGGTTAGGATAGTCCTTGTATAAGGCAA
64 AAGACAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAA
* ** * * *
79838628 CATTTAAAAAACATTGGGATAGACTCGTCTAAAGCAACCTTAAAAAGGTTGGTATAGACCTTGTC
1 CCTTT-AAAAAGGTT-GGATAGAATCGTCTAAAGCAACCTTAAAAAAGTTGGGATAGACC-TGTC
* * * *
79838693 TAAGGCAACCTTTAAAAAATGTTGGGATAGATCTTATCTAAGGCAA
63 TAAGACAACC-TT-AAAAAGGTTGGGATAGACCTTGTCTAAGGCAA
* * * * * * *
79838739 CCTTTAAAAAGGTTAGGATAGAACCATCTAAGGCAACCTTTAAAAGGTTGGGATAGA-TTCGTCC
1 CCTTTAAAAAGGTT-GGATAGAATCGTCTAAAGCAACCTTAAAAAAGTTGGGATAGACCT-GTCT
**
79838803 AAGACAACCTTAAAAAGGTTAAGATAGAC
64 AAGACAACCTTAAAAAGGTTGGGATAGAC
79838832 ACGTCTAAGC
Statistics
Matches: 255, Mismatches: 51, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
107 15 0.06
108 139 0.55
109 26 0.10
110 45 0.18
111 30 0.12
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (106 bp):
CCTTTAAAAAGGTTGGATAGAATCGTCTAAAGCAACCTTAAAAAAGTTGGGATAGACCTGTCTAA
GACAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAA
Found at i:79838625 original size:36 final size:36
Alignment explanation
Indices: 79838418--79838831 Score: 342
Period size: 35 Copynumber: 11.5 Consensus size: 36
79838408 CTGGCCTTTA
* * * *
79838418 AAAAATGTTGAGATAGA-CTCGTCTAAAGCAACCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* * * * *
79838453 AAAAAAGCTGAGATAGACC-TGTCTAAGACAACCCT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* * *
79838488 AAAAAGGTTGGGAAAAACCTTGTCTAAGGCATCCTTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACC-TT
* ** * *
79838525 GAAAAAGGTTGGAATA-AAATTGTCTAAAGCAACTTT
1 -AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* *
79838561 AAAAAAGTTGGGATAGACC-CGTCTAAGGCAACCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* * * *
79838596 AAAAAGGTTAGGATAGTCCTTGTATAAGGCAACATTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAAC-CTT
** * *
79838633 AAAAAACATTGGGATAGA-CTCGTCTAAAGCAACCTT
1 -AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
*
79838669 AAAAAGGTTGGTATAGACCTTGTCTAAGGCAACCTTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACC-TT
* * *
79838706 AAAAAATGTTGGGATAGATCTTATCTAAGGCAACCTTT
1 -AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACC-TT
* *
79838744 AAAAAGGTTAGGATAGAACC--ATCTAAGGCAACCTT
1 AAAAAGGTTGGGATAG-ACCTTGTCTAAGGCAACCTT
* * *
79838779 TAAAAGGTTGGGATAGA--TTCGTCCAAGACAACCTT
1 AAAAAGGTTGGGATAGACCTT-GTCTAAGGCAACCTT
**
79838814 AAAAAGGTTAAGATAGAC
1 AAAAAGGTTGGGATAGAC
79838832 ACGTCTAAGC
Statistics
Matches: 301, Mismatches: 62, Indels: 31
0.76 0.16 0.08
Matches are distributed among these distances:
34 1 0.00
35 139 0.46
36 56 0.19
37 44 0.15
38 61 0.20
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (36 bp):
AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
Found at i:79842702 original size:32 final size:32
Alignment explanation
Indices: 79842661--79842725 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
79842651 CAAGATGATG
79842661 AGATAGATGTAAAGGCCAAGGGCAAATATAAA
1 AGATAGATGTAAAGGCCAAGGGCAAATATAAA
79842693 AGATAGATGTAAAGGCCAAGGGCAAATATAAA
1 AGATAGATGTAAAGGCCAAGGGCAAATATAAA
79842725 A
1 A
79842726 CAAATTGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.51, C:0.09, G:0.25, T:0.15
Consensus pattern (32 bp):
AGATAGATGTAAAGGCCAAGGGCAAATATAAA
Found at i:79843337 original size:34 final size:32
Alignment explanation
Indices: 79843307--79843367 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
79843297 AGAATATTGC
79843307 TTATAA-ATCTCAATGACTACATGTAAAATAT
1 TTATAACATCTCAATGACTACATGTAAAATAT
* *
79843338 TTATAACGTTTCAATGACTACATGTAAAAT
1 TTATAACATCTCAATGACTACATGTAAAAT
79843368 GTTATAAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 6 0.22
32 21 0.78
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (32 bp):
TTATAACATCTCAATGACTACATGTAAAATAT
Found at i:79846210 original size:32 final size:32
Alignment explanation
Indices: 79846169--79846229 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
79846159 ATTTCTATGA
79846169 ATCTGAAGCTGATGTTTCTTTGGATGACATGG
1 ATCTGAAGCTGATGTTTCTTTGGATGACATGG
79846201 ATCTGAAGCTGATGTTTCTTTGGATGACA
1 ATCTGAAGCTGATGTTTCTTTGGATGACA
79846230 CAACCGCAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (32 bp):
ATCTGAAGCTGATGTTTCTTTGGATGACATGG
Found at i:79846845 original size:42 final size:42
Alignment explanation
Indices: 79846798--79846908 Score: 165
Period size: 42 Copynumber: 2.6 Consensus size: 42
79846788 TGAAATATAA
*
79846798 TTCTCTAAGTTATTTATTACTTTTTTAGCAATAAGTTATTTC
1 TTCTCTAAGTTATTTATTACTTTTTTAGCAAAAAGTTATTTC
79846840 TTCTCTAAGTTATTTATTACTTTTTTAGCAAAAAGTTATTTC
1 TTCTCTAAGTTATTTATTACTTTTTTAGCAAAAAGTTATTTC
79846882 TTACTTCTAA--TATTTAATTA-TTTTTTA
1 TT-C-TCTAAGTTATTT-ATTACTTTTTTA
79846909 TTGTAGAATA
Statistics
Matches: 65, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
42 55 0.85
43 5 0.08
44 5 0.08
ACGTcount: A:0.28, C:0.11, G:0.05, T:0.56
Consensus pattern (42 bp):
TTCTCTAAGTTATTTATTACTTTTTTAGCAAAAAGTTATTTC
Found at i:79847082 original size:17 final size:17
Alignment explanation
Indices: 79847062--79847094 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
79847052 ATTAAGAATG
79847062 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
79847079 TTATTAAATTATATTT
1 TTATTAAATTATATTT
79847095 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:79847108 original size:55 final size:57
Alignment explanation
Indices: 79847039--79847172 Score: 161
Period size: 58 Copynumber: 2.4 Consensus size: 57
79847029 TTAATTCATA
* *
79847039 TAATAATAATTATATTAAGAATGTTATTAAA-T-TATA-T-TTTTTATTAAATTATATT
1 TAATAATAATTATATTAA-AATATGATTAAACTATATATTATTTTTATTAAATTAT-TT
* *
79847094 TAATAATAATTATATTAAAATATGGTTAAACTATTTATTATTTTTATTAAATTATTT
1 TAATAATAATTATATTAAAATATGATTAAACTATATATTATTTTTATTAAATTATTT
79847151 TCAATAATAATCT-TATTAAAAT
1 T-AATAATAAT-TATATTAAAAT
79847173 TTAATAACTA
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
54 9 0.13
55 19 0.28
56 3 0.04
57 4 0.06
58 33 0.48
59 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (57 bp):
TAATAATAATTATATTAAAATATGATTAAACTATATATTATTTTTATTAAATTATTT
Found at i:79849169 original size:48 final size:48
Alignment explanation
Indices: 79849129--79849229 Score: 202
Period size: 48 Copynumber: 2.1 Consensus size: 48
79849119 AAAGATCCAG
79849129 TAAAGAAATTCCTAGAAATACCCAAATTAATAAAGAAAAAAATGATAC
1 TAAAGAAATTCCTAGAAATACCCAAATTAATAAAGAAAAAAATGATAC
79849177 TAAAGAAATTCCTAGAAATACCCAAATTAATAAAGAAAAAAATGATAC
1 TAAAGAAATTCCTAGAAATACCCAAATTAATAAAGAAAAAAATGATAC
79849225 TAAAG
1 TAAAG
79849230 GGAAACAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.58, C:0.12, G:0.09, T:0.21
Consensus pattern (48 bp):
TAAAGAAATTCCTAGAAATACCCAAATTAATAAAGAAAAAAATGATAC
Found at i:79851192 original size:128 final size:132
Alignment explanation
Indices: 79851025--79851387 Score: 432
Period size: 141 Copynumber: 2.7 Consensus size: 132
79851015 AAAACTTAGG
* * * *
79851025 AAAGTGTCGGTATAGTGTTGGACAAAGTCGACTCTTATTTAAACATTGCTTTAGGCATGCATATC
1 AAAGTGTCGGCATAGTGTTGGACAAAGTCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
* * * *
79851090 CCAACTCTTATATAAAGAGTTGGTCAAAGCGT-TGGTC-A-AAG-CACTTAGG-AAAGTGTCGGC
66 CCAACCCTTATACAAAGAGTTGGTCAAAGCGTAT-GTCGACAAGCCACTTAGGAAAAATGTCAGC
79851150 CCA
130 CCA
* **
79851153 AAAGTGTCGGCATAGTATTGGACAAAACCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
1 AAAGTGTCGGCATAGTGTTGGACAAAGTCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
*
79851218 TCAACCCTTATACAAAGAGTTGG-CTAAAGCGTATGTCGACAAGTCTATCCCAACACTTAGGAAA
66 CCAACCCTTATACAAAGAGTTGGTC-AAAGCGTATGTCGACAAG-------C--CACTTAGGAAA
79851282 AATGTCAGCCCA
121 AATGTCAGCCCA
* * * *
79851294 AAAGTGTCAGCATAGTGTTAGACAAAGTCGACTCTTCTTTAAGTGTTGCCTTAGGCATGCATATC
1 AAAGTGTCGGCATAGTGTTGGACAAAGTCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
*
79851359 CCAACCCTTATACAAAGAGTTAGTCAAAG
66 CCAACCCTTATACAAAGAGTTGGTCAAAG
79851388 TCTATGTTAG
Statistics
Matches: 198, Mismatches: 21, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
127 1 0.01
128 88 0.44
129 2 0.01
130 3 0.02
140 8 0.04
141 95 0.48
142 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (132 bp):
AAAGTGTCGGCATAGTGTTGGACAAAGTCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
CCAACCCTTATACAAAGAGTTGGTCAAAGCGTATGTCGACAAGCCACTTAGGAAAAATGTCAGCC
CA
Found at i:79851402 original size:141 final size:141
Alignment explanation
Indices: 79851131--79851422 Score: 412
Period size: 141 Copynumber: 2.1 Consensus size: 141
79851121 TTGGTCAAAG
* * * *
79851131 CACTTAGG-AAAGTGTCGGCCCAAAAGTGTCGGCATAGTATTGGACAAAACCGACTCTTATTTAA
1 CACTTAGGAAAAATGTCAGCCCAAAAGTGTCAGCATAGTATTAGACAAAACCGACTCTTATTTAA
* *
79851195 GCGTTGCCTTAGGCATGCATATCTCAACCCTTATACAAAGAGTTGGCTAAAGCGTATGTCGACAA
66 GCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCTAAAGCGTATGTAGACAA
79851260 GTCTATCCCAA
131 GTCTATCCCAA
* ** *
79851271 CACTTAGGAAAAATGTCAGCCCAAAAGTGTCAGCATAGTGTTAGACAAAGTCGACTCTTCTTTAA
1 CACTTAGGAAAAATGTCAGCCCAAAAGTGTCAGCATAGTATTAGACAAAACCGACTCTTATTTAA
* *
79851336 GTGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTAG-TCAAAGTC-TATGTTAG-
66 GCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCT-AAAG-CGTATG-TAGA
79851398 CAAGTCTATCCCAA
128 CAAGTCTATCCCAA
*
79851412 CACTTAAGAAA
1 CACTTAGGAAA
79851423 GTGTCGGTCT
Statistics
Matches: 135, Mismatches: 13, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
140 9 0.07
141 123 0.91
142 3 0.02
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (141 bp):
CACTTAGGAAAAATGTCAGCCCAAAAGTGTCAGCATAGTATTAGACAAAACCGACTCTTATTTAA
GCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCTAAAGCGTATGTAGACAA
GTCTATCCCAA
Found at i:79856762 original size:31 final size:31
Alignment explanation
Indices: 79856727--79856786 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
79856717 ACCATTTTCA
79856727 GTTACAAACGTAACAGAGTTATCATTTTTTT
1 GTTACAAACGTAACAGAGTTATCATTTTTTT
* * * *
79856758 GTTACATACTTAACGGAGTTGTCATTTTT
1 GTTACAAACGTAACAGAGTTATCATTTTT
79856787 CATCCCCCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (31 bp):
GTTACAAACGTAACAGAGTTATCATTTTTTT
Found at i:79857616 original size:11 final size:12
Alignment explanation
Indices: 79857592--79857618 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
79857582 TTTATTTGAG
79857592 TTTAATTTATTT
1 TTTAATTTATTT
79857604 TTTAATTTATTT
1 TTTAATTTATTT
79857616 TTT
1 TTT
79857619 CTTTCCCCAA
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:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTAATTTATTT
Found at i:79862697 original size:29 final size:29
Alignment explanation
Indices: 79862665--79862742 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
79862655 ATACCCTCCG
** *
79862665 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
79862694 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
79862723 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
79862743 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:79870967 original size:68 final size:68
Alignment explanation
Indices: 79870817--79870974 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 68
79870807 CTAGCCAATT
* * *
79870817 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
**
79870882 TTTA
65 CATA
* * *
79870886 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
79870948 CTACATA
63 C-ACATA
*
79870955 GTATCTCGTAGCTTTCTTGT
1 -TATCTCGTAGCTCTCTTGT
79870975 ACACATGTTG
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
68 35 0.47
69 7 0.09
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAC
ATA
Found at i:79874756 original size:30 final size:30
Alignment explanation
Indices: 79874711--79874770 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
79874701 ATTTAATACG
*
79874711 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
79874741 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
79874771 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:79881811 original size:47 final size:45
Alignment explanation
Indices: 79881697--79881817 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 45
79881687 GCCCATAAGT
* * *
79881697 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTTGCATCCATAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGAGCCTTTACATCCA-AGC
79881742 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC-A-C
1 GAACTCGGACTCAACTCAACGAGCTCGGA-GCCT--TTACATC-CAAGC
*
79881789 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
79881818 ACTCAACCAT
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
45 26 0.39
46 2 0.03
47 31 0.46
48 1 0.01
49 6 0.09
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGCTCGGAGCCTTTACATCCAAGC
Found at i:79886049 original size:16 final size:16
Alignment explanation
Indices: 79886030--79886060 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
79886020 TATGAAAAAC
79886030 TTTGAGCTCGAGAAAG
1 TTTGAGCTCGAGAAAG
*
79886046 TTTGGGCTCGAGAAA
1 TTTGAGCTCGAGAAA
79886061 ATCCAAGCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (16 bp):
TTTGAGCTCGAGAAAG
Found at i:79887536 original size:40 final size:39
Alignment explanation
Indices: 79887371--79887554 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
79887361 AAATTGAATG
* * *
79887371 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
79887411 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
79887451 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
79887491 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
79887530 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
79887555 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:79887579 original size:80 final size:81
Alignment explanation
Indices: 79887411--79887599 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
79887401 GCTGGAAATT
* * * *
79887411 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
79887476 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
79887492 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
79887555 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
79887571 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
79887600 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:79894842 original size:40 final size:39
Alignment explanation
Indices: 79894677--79894860 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
79894667 AAATTGAATG
* * *
79894677 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
79894717 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
79894757 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
79894797 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
79894836 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
79894861 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:79894885 original size:80 final size:81
Alignment explanation
Indices: 79894717--79894905 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
79894707 GCTGGAAATT
* * * *
79894717 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
79894782 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
79894798 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
79894861 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
79894877 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
79894906 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:79897251 original size:15 final size:15
Alignment explanation
Indices: 79897231--79897261 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
79897221 AAATATGAAA
79897231 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
79897246 GATATGTTTTGTATT
1 GATATGTTTTGGATT
79897261 G
1 G
79897262 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:79897900 original size:45 final size:45
Alignment explanation
Indices: 79897810--79897900 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 45
79897800 GTAGGATTTT
* * * ** * *
79897810 GATATATGTGTTTTCGAGTAAGACTATGTCTGGGATGTTGGCATC
1 GATATATGTGGTTACGAGTAAGACCATGTCTGGGACATCGACATC
*
79897855 GATATATGTGGTTACGTGTAAGACCATGTCTGGGACATCGACATC
1 GATATATGTGGTTACGAGTAAGACCATGTCTGGGACATCGACATC
79897900 G
1 G
79897901 TATTTGATTC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (45 bp):
GATATATGTGGTTACGAGTAAGACCATGTCTGGGACATCGACATC
Found at i:79905068 original size:15 final size:15
Alignment explanation
Indices: 79905048--79905078 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
79905038 AAATATGAAA
79905048 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
79905063 GATATGTTTTGTATT
1 GATATGTTTTGGATT
79905078 G
1 G
79905079 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:79906148 original size:40 final size:40
Alignment explanation
Indices: 79906084--79906164 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
79906074 AAAATCGAAT
* *
79906084 AGATTGAGTATTAGCGGCGTTTTTAAGAAAGCGCAGCTAA
1 AGATCGAGCATTAGCGGCGTTTTTAAGAAAGCGCAGCTAA
*
79906124 AGATCGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
1 AGATCGAGCATTAGCGGCGTTTTTAAGAAAGCGCAGCTAA
79906164 A
1 A
79906165 AGATTAAGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (40 bp):
AGATCGAGCATTAGCGGCGTTTTTAAGAAAGCGCAGCTAA
Found at i:79907007 original size:22 final size:22
Alignment explanation
Indices: 79906913--79907007 Score: 74
Period size: 22 Copynumber: 4.4 Consensus size: 22
79906903 TAAACACCAC
79906913 ACCC-TAAATCTCAAATCATAA
1 ACCCTTAAATCTCAAATCATAA
* * *
79906934 CCCCTTAAGA-CTAAAAACGATAA
1 ACCCTTAA-ATCTCAAATC-ATAA
* * *
79906957 A-CCTT-AATCCCAACACCTTAA
1 ACCCTTAAATCTCAA-ATCATAA
79906978 ACCC-TAAATCTCAAATCATAA
1 ACCCTTAAATCTCAAATCATAA
79906999 ACCCTTAAA
1 ACCCTTAAA
79907008 ACTCCAACAT
Statistics
Matches: 55, Mismatches: 11, Indels: 15
0.68 0.14 0.19
Matches are distributed among these distances:
20 1 0.02
21 21 0.38
22 28 0.51
23 5 0.09
ACGTcount: A:0.45, C:0.31, G:0.02, T:0.22
Consensus pattern (22 bp):
ACCCTTAAATCTCAAATCATAA
Found at i:79907048 original size:65 final size:65
Alignment explanation
Indices: 79906841--79907050 Score: 155
Period size: 65 Copynumber: 3.2 Consensus size: 65
79906831 ACCCTTTAAC
* * *
79906841 CCCCAAACCCTAAATCTCTAATCATAAACCCTTAAAACTACAAAC-ACT-AA--TTAATTACTCT
1 CCCCAAACCCTAAATCTCAAATCATAAACCCTTAAAACTAAAAACGA-TAAACCCTAA--AC-C-
*
79906902 TTAA-A
61 -CAACA
* * * * * *
79906907 CACCACACCCTAAATCTCAAATCATAACCCCTTAAGACTAAAAACGATAAACCTTAATCCCAACA
1 CCCCAAACCCTAAATCTCAAATCATAAACCCTTAAAACTAAAAACGATAAACCCTAAACCCAACA
** * * *
79906972 CCTTAAACCCTAAATCTCAAATCATAAACCCTTAAAACTCCAACATG-TAAACCCTAACACCCAA
1 CCCCAAACCCTAAATCTCAAATCATAAACCCTTAAAACT-AAAAACGATAAACCCTAA-ACCCAA
79907036 -A
64 CA
*
79907037 CCCCAAGCCCTAAA
1 CCCCAAACCCTAAA
79907051 ACTAACTTTT
Statistics
Matches: 115, Mismatches: 22, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
64 2 0.02
65 55 0.48
66 50 0.43
67 4 0.03
69 4 0.03
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (65 bp):
CCCCAAACCCTAAATCTCAAATCATAAACCCTTAAAACTAAAAACGATAAACCCTAAACCCAACA
Found at i:79907326 original size:8 final size:8
Alignment explanation
Indices: 79907302--79907344 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
79907292 ATAAAAATCT
79907302 TTAAAATAA
1 TTAAAA-AA
79907311 TT-AAAAA
1 TTAAAAAA
79907318 TTAAAAAA
1 TTAAAAAA
79907326 TT-AAAAA
1 TTAAAAAA
*
79907333 TTAAAAAT
1 TTAAAAAA
79907341 TTAA
1 TTAA
79907345 TATTTAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
7 11 0.35
8 18 0.58
9 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
TTAAAAAA
Found at i:79907331 original size:6 final size:7
Alignment explanation
Indices: 79907309--79907341 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
79907299 TCTTTAAAAT
79907309 AATTAAA
1 AATTAAA
79907316 AATTAAAA
1 AATT-AAA
79907324 AATTAAA
1 AATTAAA
79907331 AATTAAA
1 AATTAAA
79907338 AATT
1 AATT
79907342 TAATATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AATTAAA
Found at i:79907351 original size:15 final size:15
Alignment explanation
Indices: 79907302--79907344 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
79907292 ATAAAAATCT
79907302 TTAAAATAATTAAAAA
1 TTAAAA-AATTAAAAA
79907318 TTAAAAAATTAAAAA
1 TTAAAAAATTAAAAA
*
79907333 TTAAAAATTTAA
1 TTAAAAAATTAA
79907345 TATTTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 20 0.77
16 6 0.23
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TTAAAAAATTAAAAA
Found at i:79907481 original size:18 final size:17
Alignment explanation
Indices: 79907445--79907494 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
79907435 TTTTGGAAGA
**
79907445 AAAAATAAAAAAATGTT
1 AAAAATAAAAAAAAATT
79907462 AAAAATGAAAAAAAAATT
1 AAAAAT-AAAAAAAAATT
*
79907480 AAAATTAAATAAAAA
1 AAAAATAAA-AAAAA
79907495 GTTTAGATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (17 bp):
AAAAATAAAAAAAAATT
Found at i:79912446 original size:18 final size:18
Alignment explanation
Indices: 79912411--79912446 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
79912401 TCGACACTTA
* *
79912411 CATATATATGTATTTAGG
1 CATATATATATATATAGG
79912429 CATATATATATATATAGG
1 CATATATATATATATAGG
79912447 TATGTGTGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.42
Consensus pattern (18 bp):
CATATATATATATATAGG
Found at i:79916626 original size:26 final size:26
Alignment explanation
Indices: 79916597--79916649 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
79916587 TTTACAGTTT
79916597 TACCCCTAGGAGATAAA-TGACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
79916623 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
79916649 T
1 T
79916650 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:79924719 original size:26 final size:26
Alignment explanation
Indices: 79924690--79924742 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
79924680 TTTACAGTTT
79924690 TACCCCTAGGAGATAAA-TGACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
79924716 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
79924742 T
1 T
79924743 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:79929709 original size:74 final size:75
Alignment explanation
Indices: 79929618--79929767 Score: 248
Period size: 74 Copynumber: 2.0 Consensus size: 75
79929608 AAGCTTAAAG
79929618 AACTTATATATCAAATTTATTAAACTTTTAGTTAATG-AAAAATCTACTCATTGTACTCAAAATT
1 AACTTATATATCAAATTTATTAAACTTTTAGTTAATGAAAAAATCTACTCATTGTACTCAAAATT
79929682 CATATGAAAA
66 CATATGAAAA
* * * * *
79929692 AACTTATTTATCGAATTTATTAAACTTTTAGTTAATGAAAAAATCTACTCGTTGTACTTATAATT
1 AACTTATATATCAAATTTATTAAACTTTTAGTTAATGAAAAAATCTACTCATTGTACTCAAAATT
79929757 CATATGAAAA
66 CATATGAAAA
79929767 A
1 A
79929768 TGAACACGAT
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
74 35 0.50
75 35 0.50
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (75 bp):
AACTTATATATCAAATTTATTAAACTTTTAGTTAATGAAAAAATCTACTCATTGTACTCAAAATT
CATATGAAAA
Found at i:79932894 original size:39 final size:39
Alignment explanation
Indices: 79932850--79933006 Score: 226
Period size: 39 Copynumber: 4.0 Consensus size: 39
79932840 GATGTGTATG
*
79932850 AATGTGCGAATTGTGATATCCGGGCTAAGCCCAAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
79932889 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
79932928 AATGTGCGAGA-TATGATATCCGGGCTAAGCCTGAAGGCG
1 AATGTGCGA-ATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
79932967 ATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
79933007 TTTGTGCAGG
Statistics
Matches: 105, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 96 0.91
40 9 0.09
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.22
Consensus pattern (39 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:79935483 original size:38 final size:38
Alignment explanation
Indices: 79935433--79935532 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 38
79935423 ATCCTAGAAA
*
79935433 AAAAAAGAATTTAAAAAGAAGATAATCTTGGGTTGTTG
1 AAAAAAGAATTTAAAAAGAAGATAATCTTGGATTGTTG
*
79935471 AAAAAATAATTTAAAAAGAGGAGAAGATAATCTTGGATTGTTG
1 AAAAAAGAATTT--AAA-A--AGAAGATAATCTTGGATTGTTG
79935514 AAAAAAGAATTTAAAAAGA
1 AAAAAAGAATTTAAAAAGA
79935533 TGAGAAGATA
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
38 14 0.26
40 4 0.07
41 4 0.07
43 32 0.59
ACGTcount: A:0.53, C:0.02, G:0.19, T:0.26
Consensus pattern (38 bp):
AAAAAAGAATTTAAAAAGAAGATAATCTTGGATTGTTG
Found at i:79935498 original size:43 final size:43
Alignment explanation
Indices: 79935449--79935543 Score: 163
Period size: 43 Copynumber: 2.2 Consensus size: 43
79935439 GAATTTAAAA
* *
79935449 AGAAGATAATCTTGGGTTGTTGAAAAAATAATTTAAAAAGAGG
1 AGAAGATAATCTTGGATTGTTGAAAAAAGAATTTAAAAAGAGG
*
79935492 AGAAGATAATCTTGGATTGTTGAAAAAAGAATTTAAAAAGATG
1 AGAAGATAATCTTGGATTGTTGAAAAAAGAATTTAAAAAGAGG
79935535 AGAAGATAA
1 AGAAGATAA
79935544 ACATAGGTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.49, C:0.02, G:0.22, T:0.26
Consensus pattern (43 bp):
AGAAGATAATCTTGGATTGTTGAAAAAAGAATTTAAAAAGAGG
Found at i:79935555 original size:43 final size:42
Alignment explanation
Indices: 79935449--79935556 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 42
79935439 GAATTTAAAA
* *
79935449 AGAAGATAATCTTGGGTTGTTGAAAAAATAATTTAAAAAGAGG
1 AGAAGATAATC-TAGGTTGTTGAAAAAAGAATTTAAAAAGAGG
* *
79935492 AGAAGATAATCTTGGATTGTTGAAAAAAGAATTTAAAAAGATG
1 AGAAGATAATCTAGG-TTGTTGAAAAAAGAATTTAAAAAGAGG
*
79935535 AGAAGATAAACATAGGTTGTTG
1 AGAAGATAATC-TAGGTTGTTG
79935557 GATTTACCCT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
42 3 0.05
43 52 0.90
44 3 0.05
ACGTcount: A:0.46, C:0.03, G:0.23, T:0.28
Consensus pattern (42 bp):
AGAAGATAATCTAGGTTGTTGAAAAAAGAATTTAAAAAGAGG
Found at i:79938943 original size:30 final size:30
Alignment explanation
Indices: 79938909--79938969 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
79938899 TTCCCGAGCC
79938909 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
79938939 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
79938969 T
1 T
79938970 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:79939750 original size:68 final size:67
Alignment explanation
Indices: 79939678--79939827 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
79939668 CATCATGTGT
* * * *
79939678 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
79939740 ATGTAG
62 ATGTAG
** * *
79939746 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
79939811 AG
66 AG
79939813 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
79939828 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:79939783 original size:64 final size:64
Alignment explanation
Indices: 79939702--79939885 Score: 187
Period size: 67 Copynumber: 2.8 Consensus size: 64
79939692 AGACATTATG
* *
79939702 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
79939766 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
79939831 AA
63 AA
* * *
79939833 ACTG--GCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
79939886 CGAACTATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 7 0.07
66 17 0.17
67 31 0.32
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:79942248 original size:23 final size:23
Alignment explanation
Indices: 79942198--79942251 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
79942188 AGCTTATATA
**
79942198 AGCTTACCGTTTCAGCTCTTTGG
1 AGCTTACCGTTTCAGCTCTACGG
* *
79942221 GGCTTATCGTTTCAGCTCTACGG
1 AGCTTACCGTTTCAGCTCTACGG
79942244 AGCTTACC
1 AGCTTACC
79942252 ATTCATCTCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.15, C:0.28, G:0.22, T:0.35
Consensus pattern (23 bp):
AGCTTACCGTTTCAGCTCTACGG
Done.