Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 317 of 332
Found at i:104069037 original size:20 final size:20
Alignment explanation
Indices: 104069012--104069053 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
104069002 GATAAGCAGA
104069012 AGTAGTTCTTTTGGAAGGGC
1 AGTAGTTCTTTTGGAAGGGC
104069032 AGTAGTTCTTTTGGAAGGGC
1 AGTAGTTCTTTTGGAAGGGC
104069052 AG
1 AG
104069054 AGCGGAGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.10, G:0.36, T:0.33
Consensus pattern (20 bp):
AGTAGTTCTTTTGGAAGGGC
Found at i:104075044 original size:18 final size:18
Alignment explanation
Indices: 104075018--104075057 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
104075008 AATTATATAT
104075018 TTATCTACGTTATATAAG
1 TTATCTACGTTATATAAG
* * *
104075036 TTATGTACGTTTTGTAAG
1 TTATCTACGTTATATAAG
104075054 TTAT
1 TTAT
104075058 ATAAATTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (18 bp):
TTATCTACGTTATATAAG
Found at i:104075191 original size:15 final size:15
Alignment explanation
Indices: 104075171--104075226 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
104075161 TAAGTAGCGG
104075171 ATTAAATAATATTTA
1 ATTAAATAATATTTA
104075186 ATTAAATAATATTT-
1 ATTAAATAATATTTA
104075200 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
104075215 ATTAAGTAATAT
1 ATTAAATAATAT
104075227 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:104079774 original size:15 final size:15
Alignment explanation
Indices: 104079756--104079787 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
104079746 AAATAATATT
*
104079756 TTATATATATTTATC
1 TTATATACATTTATC
104079771 TTATATACATTTATC
1 TTATATACATTTATC
104079786 TT
1 TT
104079788 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:104080977 original size:41 final size:41
Alignment explanation
Indices: 104080799--104080969 Score: 288
Period size: 41 Copynumber: 4.2 Consensus size: 41
104080789 GTTATGAGAT
*
104080799 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTTTGGC
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
* *
104080840 TTTTAGCGGCGTTTTACCTAACGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
104080881 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
* * *
104080922 TTTTAGTGGCGTTTTACAGAAAGTGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
104080963 TTTTAGC
1 TTTTAGC
104080970 TCTGTTTTTT
Statistics
Matches: 121, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 121 1.00
ACGTcount: A:0.17, C:0.25, G:0.26, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
Found at i:104081008 original size:41 final size:40
Alignment explanation
Indices: 104080799--104081042 Score: 170
Period size: 41 Copynumber: 6.0 Consensus size: 40
104080789 GTTATGAGAT
** * * * *
104080799 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTTTGGC
1 TTTTAGCGGCGTTTTTTCTAAAACGCCGCTATTGCTCT-GC
** ** *
104080840 TTTTAGCGGCGTTTTACCTAACGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTTTCTAAAACGCCGCTATTGCTCT-GC
** * * *
104080881 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTTTCTAAAACGCCGCTATTGCTCT-GC
* * * *
104080922 TTTTAGTGGCG-TTTTAC-AGAAAGTGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTTTCTA-AAA-CGCCGCTATTGCTCT-GC
* * *
104080963 TTTTAGC-TCTGTTTTTTACTAAAACGCCGCTGTTGCTCTGT
1 TTTTAGCGGC-GTTTTTT-CTAAAACGCCGCTATTGCTCTGC
* *
104081004 TTTTAGCGGCGTTTTTTTTAGAACGCCGCTATTGCTCTG
1 TTTTAGCGGCGTTTTTTCTAAAACGCCGCTATTGCTCTG
104081043 AATTTTAAAA
Statistics
Matches: 175, Mismatches: 21, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 26 0.15
41 126 0.72
42 17 0.10
43 4 0.02
44 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTTCTAAAACGCCGCTATTGCTCTGC
Found at i:104081008 original size:82 final size:82
Alignment explanation
Indices: 104080799--104081018 Score: 275
Period size: 82 Copynumber: 2.7 Consensus size: 82
104080789 GTTATGAGAT
* * ** *
104080799 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTTTGGCTTTTAGCGGCGTTTTACCTAACGC
1 TTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACAGAAAGC
104080864 GCCGCTAATGCTCTGGC
66 GCCGCTAATGCTCTGGC
* * *
104080881 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGCTTTTAGTGGCGTTTTACAGAAAGT
1 TTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACAGAAAGC
104080946 GCCGCTAATGCTCTGGC
66 GCCGCTAATGCTCTGGC
* * ** *
104080963 TTTTAGC-TCTGTTTTTTA-CTAAAACGCCGCTGTTGCTCT-GTTTTTAGCGGCGTTTT
1 TTTTAGCGGC-G--TTTTACCGAAAACGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTT
104081019 TTTTAGAACG
Statistics
Matches: 122, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
81 1 0.01
82 99 0.81
83 17 0.14
84 5 0.04
ACGTcount: A:0.16, C:0.24, G:0.25, T:0.36
Consensus pattern (82 bp):
TTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACAGAAAGC
GCCGCTAATGCTCTGGC
Found at i:104081049 original size:123 final size:123
Alignment explanation
Indices: 104080799--104081049 Score: 285
Period size: 123 Copynumber: 2.0 Consensus size: 123
104080789 GTTATGAGAT
* * **
104080799 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTTTGGCTTTTAGCGGCGTTTTACCTAACGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACCTAAAAC
**
104080864 GCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
66 GCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGAA
* * *
104080922 TTTTAGTGGCGTTTTACAGAAAGTGCCGCTAATGCTCTGGCTTTTAGC-TCTGTTTTTTA-CTAA
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGCTTTTAGCGGC-G--TTTTACCTAA
** * **** *
104080985 AACGCCGCTGTTGCTCT-GTTTTTAGCGGCGTTTTTTTTAGAA-CGCCGCTATTGCTCTGAA
63 AACGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACCGA-AAGCGCCGCTAATGCTCTGAA
104081045 TTTTA
1 TTTTA
104081050 AAATTTTGGC
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
122 1 0.01
123 82 0.77
124 19 0.18
125 5 0.05
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.37
Consensus pattern (123 bp):
TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACCTAAAAC
GCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGAA
Found at i:104081757 original size:21 final size:20
Alignment explanation
Indices: 104081715--104081761 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
104081705 TAAAAAATTT
** *
104081715 AAAAAAATAAAAATTTGTTA
1 AAAAAAATAAAAAGCTGGTA
104081735 AAAAAAACTAAAAAGCTGGTA
1 AAAAAAA-TAAAAAGCTGGTA
104081756 AAAAAA
1 AAAAAA
104081762 GTGACGGAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.68, C:0.04, G:0.09, T:0.19
Consensus pattern (20 bp):
AAAAAAATAAAAAGCTGGTA
Found at i:104081910 original size:25 final size:25
Alignment explanation
Indices: 104081878--104081944 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
104081868 CTATTAGATT
*
104081878 TTTTTCTCTTCTCTTTCTCCTTC-C
1 TTTTTCTCTTCTCTTTCTCATTCTC
*
104081902 TTCTTTCTC-TCTATTCTCTCATTCTC
1 TT-TTTCTCTTCTCTT-TCTCATTCTC
*
104081928 TTTTTCT-TTTTCTTTCT
1 TTTTTCTCTTCTCTTTCT
104081945 TCTTTTTCCC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
24 10 0.29
25 22 0.63
26 3 0.09
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTTTCTCTTCTCTTTCTCATTCTC
Found at i:104083362 original size:44 final size:45
Alignment explanation
Indices: 104083272--104083400 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
104083262 ACAAAACAAA
*
104083272 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
104083318 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
104083362 AATAATTCATGTAAGTCCATGTCAAAGATATAGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
104083401 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:104084797 original size:20 final size:20
Alignment explanation
Indices: 104084772--104084818 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
104084762 CTCTATCACT
*
104084772 TTTTTTTACCAATTTTTTGG
1 TTTTTTTAACAATTTTTTGG
104084792 TTTTTTTAACAATTTTTTGG
1 TTTTTTTAACAATTTTTTGG
104084812 TTTTTTT
1 TTTTTTT
104084819 TTAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.70
Consensus pattern (20 bp):
TTTTTTTAACAATTTTTTGG
Found at i:104085092 original size:20 final size:20
Alignment explanation
Indices: 104085064--104085102 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
104085054 ACCACATATC
* *
104085064 AAAATTTTTAATGCTATACT
1 AAAACTTTTAACGCTATACT
104085084 AAAACTTTTAACGCTATAC
1 AAAACTTTTAACGCTATAC
104085103 CAATACTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAACTTTTAACGCTATACT
Found at i:104086841 original size:21 final size:22
Alignment explanation
Indices: 104086812--104086859 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
104086802 ACTAATTTAA
104086812 TTAAG-TTAATC-CTTAATTAT-
1 TTAAGTTTAATCAC-TAATTATG
104086832 TTAAGTTTAATCACTAATTATG
1 TTAAGTTTAATCACTAATTATG
104086854 TTAAGT
1 TTAAGT
104086860 AAATATCATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.20
21 13 0.52
22 7 0.28
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (22 bp):
TTAAGTTTAATCACTAATTATG
Found at i:104087394 original size:12 final size:13
Alignment explanation
Indices: 104087372--104087402 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
104087362 TGAATTATTC
104087372 AAATCTTCTTTTA
1 AAATCTTCTTTTA
104087385 AAAT-TTCTTTTA
1 AAATCTTCTTTTA
104087397 AAATCT
1 AAATCT
104087403 GGAATACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (13 bp):
AAATCTTCTTTTA
Found at i:104089567 original size:19 final size:19
Alignment explanation
Indices: 104089545--104089600 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
104089535 GGATACATTG
104089545 AATAAAATCTTTATACTTA
1 AATAAAATCTTTATACTTA
*
104089564 AATAAAA----TACA-TTA
1 AATAAAATCTTTATACTTA
104089578 AA-AAAATCTTTATACTTA
1 AATAAAATCTTTATACTTA
104089596 AATAA
1 AATAA
104089601 CATTAAGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
13 4 0.14
14 5 0.17
15 3 0.10
17 3 0.10
18 5 0.17
19 9 0.31
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (19 bp):
AATAAAATCTTTATACTTA
Found at i:104089586 original size:32 final size:33
Alignment explanation
Indices: 104089537--104089600 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
104089527 AACAAATTGG
*
104089537 ATACATTGAATAAAATCTTTATACTTAAATAAA
1 ATACATTGAAAAAAATCTTTATACTTAAATAAA
104089570 ATACATT-AAAAAAATCTTTATACTTAAATAA
1 ATACATTGAAAAAAATCTTTATACTTAAATAA
104089601 CATTAAGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 23 0.77
33 7 0.23
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (33 bp):
ATACATTGAAAAAAATCTTTATACTTAAATAAA
Found at i:104090189 original size:19 final size:19
Alignment explanation
Indices: 104090134--104090192 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
104090124 CATCATGAAC
*
104090134 AATAATAATATGGAAATAA
1 AATAATAATATGGAAATAT
** * *
104090153 AATTTTAAAAT--AACTAT
1 AATAATAATATGGAAATAT
104090170 AATAATAATATGGAAATAT
1 AATAATAATATGGAAATAT
104090189 AATA
1 AATA
104090193 TGATATAATA
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
17 12 0.41
19 17 0.59
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (19 bp):
AATAATAATATGGAAATAT
Found at i:104090732 original size:8 final size:8
Alignment explanation
Indices: 104090719--104090776 Score: 57
Period size: 8 Copynumber: 7.2 Consensus size: 8
104090709 ATTTCATGCT
104090719 AATTTTTA
1 AATTTTTA
104090727 AATTTTTA
1 AATTTTTA
*
104090735 TATTTTTTA
1 -AATTTTTA
104090744 AA-TTTTA
1 AATTTTTA
*
104090751 AATATTTTT
1 AAT-TTTTA
104090760 AA-TTTTA
1 AATTTTTA
*
104090767 TATTTTTA
1 AATTTTTA
104090775 AA
1 AA
104090777 ATTATCTGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
7 12 0.30
8 15 0.38
9 13 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
AATTTTTA
Found at i:104090741 original size:16 final size:16
Alignment explanation
Indices: 104090720--104090776 Score: 73
Period size: 17 Copynumber: 3.6 Consensus size: 16
104090710 TTTCATGCTA
104090720 ATTTTTAAATTTTTAT
1 ATTTTTAAATTTTTAT
*
104090736 ATTTTTTAAATTTTAAAT
1 A-TTTTTAAATTTT-TAT
104090754 ATTTTT-AA-TTTTAT
1 ATTTTTAAATTTTTAT
104090768 ATTTTTAAA
1 ATTTTTAAA
104090777 ATTATCTGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
14 8 0.22
15 5 0.14
16 3 0.08
17 17 0.47
18 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTTAAATTTTTAT
Found at i:104090773 original size:24 final size:25
Alignment explanation
Indices: 104090718--104090779 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
104090708 TATTTCATGC
*
104090718 TAATTTTT-AAATTTTTATATTTTT
1 TAATTTTTAAAATTTTTATATTTTA
*
104090742 TAAATTTTAAATATTTTTA-ATTTTA
1 TAATTTTTAAA-ATTTTTATATTTTA
104090767 T-ATTTTTAAAATT
1 TAATTTTTAAAATT
104090780 ATCTGTTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 3 0.09
24 15 0.45
25 8 0.24
26 7 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TAATTTTTAAAATTTTTATATTTTA
Found at i:104090779 original size:16 final size:16
Alignment explanation
Indices: 104090720--104090779 Score: 70
Period size: 16 Copynumber: 3.8 Consensus size: 16
104090710 TTTCATGCTA
*
104090720 ATTTTTAAATTTTTAT
1 ATTTTTAAAATTTTAT
*
104090736 ATTTTTTAAATTTTAAAT
1 ATTTTTAAAATTTT--AT
104090754 ATTTTT--AATTTTAT
1 ATTTTTAAAATTTTAT
104090768 ATTTTTAAAATT
1 ATTTTTAAAATT
104090780 ATCTGTTTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 8 0.21
16 22 0.58
18 8 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTTAAAATTTTAT
Found at i:104092081 original size:20 final size:21
Alignment explanation
Indices: 104092056--104092095 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
104092046 GGTTTATAAA
104092056 TAAATACTAA-TAATT-TTATT
1 TAAATA-TAATTAATTATTATT
104092076 TAAATATAATTAATTATTAT
1 TAAATATAATTAATTATTAT
104092096 AAATAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 11 0.61
21 4 0.22
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (21 bp):
TAAATATAATTAATTATTATT
Found at i:104102092 original size:50 final size:50
Alignment explanation
Indices: 104102017--104102114 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
104102007 TTATAGCAAA
104102017 CAGTTCAAATCATCAACATTCGAATTTAAAACCATGTGTACATTACCAAG
1 CAGTTCAAATCATCAACATTCGAATTTAAAACCATGTGTACATTACCAAG
*
104102067 CAGTTCAAATCATCAACATTCGAATTTAAAACTATGTGTACATTACCA
1 CAGTTCAAATCATCAACATTCGAATTTAAAACCATGTGTACATTACCA
104102115 CTATATCAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (50 bp):
CAGTTCAAATCATCAACATTCGAATTTAAAACCATGTGTACATTACCAAG
Found at i:104104262 original size:27 final size:27
Alignment explanation
Indices: 104104224--104104276 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
104104214 ACTTTCGAGA
*
104104224 AAGTAAATAATAGATATTTATTTAGAC
1 AAGTAAATAATAAATATTTATTTAGAC
*
104104251 AAGTAAATAATAAATCTTTATTTAGA
1 AAGTAAATAATAAATATTTATTTAGA
104104277 TAATTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (27 bp):
AAGTAAATAATAAATATTTATTTAGAC
Found at i:104123995 original size:25 final size:23
Alignment explanation
Indices: 104123950--104123993 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
104123940 AAAATAGATA
104123950 GAATTTTTCTTCAATGAAAAAGT
1 GAATTTTTCTTCAATGAAAAAGT
104123973 GAATATTTT-TTCAATGAAAAA
1 GAAT-TTTTCTTCAATGAAAAA
104123994 AATGTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (23 bp):
GAATTTTTCTTCAATGAAAAAGT
Found at i:104132287 original size:23 final size:22
Alignment explanation
Indices: 104132260--104132304 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
104132250 GATATTCGAA
104132260 TTTGTTAAATATTTAAATTTAAT
1 TTTGTTAAA-ATTTAAATTTAAT
**
104132283 TTTGTTAAAATTTTGATTTAAT
1 TTTGTTAAAATTTAAATTTAAT
104132305 GATAAGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (22 bp):
TTTGTTAAAATTTAAATTTAAT
Found at i:104133213 original size:16 final size:14
Alignment explanation
Indices: 104133175--104133225 Score: 57
Period size: 16 Copynumber: 3.4 Consensus size: 14
104133165 TATAACTAGA
*
104133175 ATAAATAAATATATT
1 ATAATTAAATAT-TT
*
104133190 AAAATTAAATATGCTT
1 ATAATTAAATAT--TT
104133206 ATAATTAAATATTT
1 ATAATTAAATATTT
104133220 ATAATT
1 ATAATT
104133226 TTGAAAAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 8 0.26
15 10 0.32
16 13 0.42
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (14 bp):
ATAATTAAATATTT
Found at i:104135670 original size:9 final size:9
Alignment explanation
Indices: 104135652--104135686 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
104135642 TGCAGCAGTT
*
104135652 GCTGCTGCG
1 GCTGCAGCG
104135661 GCTGCAGCG
1 GCTGCAGCG
*
104135670 GCTGCTGCG
1 GCTGCAGCG
104135679 GCTGCAGC
1 GCTGCAGC
104135687 TGATGCAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.06, C:0.34, G:0.43, T:0.17
Consensus pattern (9 bp):
GCTGCAGCG
Found at i:104135673 original size:18 final size:18
Alignment explanation
Indices: 104135652--104135686 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
104135642 TGCAGCAGTT
104135652 GCTGCTGCGGCTGCAGCG
1 GCTGCTGCGGCTGCAGCG
104135670 GCTGCTGCGGCTGCAGC
1 GCTGCTGCGGCTGCAGC
104135687 TGATGCAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.34, G:0.43, T:0.17
Consensus pattern (18 bp):
GCTGCTGCGGCTGCAGCG
Found at i:104141114 original size:15 final size:16
Alignment explanation
Indices: 104141094--104141123 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
104141084 ATAATATTAT
104141094 TTAAAA-TTATTATTC
1 TTAAAATTTATTATTC
104141109 TTAAAATTTATTATT
1 TTAAAATTTATTATT
104141124 AAAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TTAAAATTTATTATTC
Found at i:104141176 original size:22 final size:22
Alignment explanation
Indices: 104141136--104141193 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
104141126 AATAAAATTG
*
104141136 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
104141156 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* *
104141178 TATTAATAAATT-TATT
1 AAATAATAAATTATATT
104141194 ATATGAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.27
21 6 0.18
22 18 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:104141192 original size:17 final size:17
Alignment explanation
Indices: 104141170--104141205 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
104141160 AATAAATTAT
*
104141170 ATTTATTATATTAATAA
1 ATTTATTATATGAATAA
104141187 ATTTATTATATGAATAA
1 ATTTATTATATGAATAA
104141204 AT
1 AT
104141206 ATAAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTTATTATATGAATAA
Found at i:104142135 original size:13 final size:14
Alignment explanation
Indices: 104142109--104142141 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
104142099 AAACAAATTT
*
104142109 AATTTTTTTGTTTA
1 AATTTATTTGTTTA
104142123 AATTTATTT-TTTA
1 AATTTATTTGTTTA
104142136 AATTTA
1 AATTTA
104142142 ATATTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (14 bp):
AATTTATTTGTTTA
Found at i:104142141 original size:19 final size:19
Alignment explanation
Indices: 104142119--104142156 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
104142109 AATTTTTTTG
*
104142119 TTTAA-ATTTATTTTTTAAA
1 TTTAATATTT-TTATTTAAA
104142138 TTTAATATTTTTATTTAAA
1 TTTAATATTTTTATTTAAA
104142157 CTCTCTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTAATATTTTTATTTAAA
Found at i:104143528 original size:31 final size:32
Alignment explanation
Indices: 104143493--104143553 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
104143483 ACTTAAATTT
104143493 TTTTTATTC-AATTCAGTACCTAAACTTGACA
1 TTTTTATTCTAATTCAGTACCTAAACTTGACA
* * **
104143524 TTTTTTTTCTATTTTGGTACCTAAACTTGA
1 TTTTTATTCTAATTCAGTACCTAAACTTGA
104143554 TAGCTATTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 8 0.32
32 17 0.68
ACGTcount: A:0.26, C:0.16, G:0.08, T:0.49
Consensus pattern (32 bp):
TTTTTATTCTAATTCAGTACCTAAACTTGACA
Found at i:104147702 original size:33 final size:35
Alignment explanation
Indices: 104147637--104147702 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 35
104147627 ATGTGAAATT
* * *
104147637 ATATATTTGTTTTATAATTTTGTAATATTATAATA
1 ATATATTTGTTTTAAAAATTTGTAATACTATAATA
*
104147672 ATAT-TTTGTTTTAAAAATTT-TATTACTATAA
1 ATATATTTGTTTTAAAAATTTGTAATACTATAA
104147703 CTTAAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 9 0.33
34 14 0.52
35 4 0.15
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (35 bp):
ATATATTTGTTTTAAAAATTTGTAATACTATAATA
Found at i:104152991 original size:3 final size:3
Alignment explanation
Indices: 104152983--104153031 Score: 53
Period size: 3 Copynumber: 14.7 Consensus size: 3
104152973 AAGGCTCGAT
104152983 TTA TTA TTA TTA TTAA TTA TTAA TTA TTAA TTA TTAA TTA TTA TATA
1 TTA TTA TTA TTA TT-A TTA TT-A TTA TT-A TTA TT-A TTA TTA T-TA
104153030 TT
1 TT
104153032 TTCTTATGCT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
3 26 0.63
4 15 0.37
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:104153003 original size:7 final size:7
Alignment explanation
Indices: 104152985--104153025 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
104152975 GGCTCGATTT
104152985 ATTATT-
1 ATTATTA
104152991 ATTATTA
1 ATTATTA
104152998 ATTATTA
1 ATTATTA
104153005 ATTATTA
1 ATTATTA
104153012 ATTATTA
1 ATTATTA
104153019 ATTATTA
1 ATTATTA
104153026 TATATTTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 6 0.18
7 28 0.82
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
ATTATTA
Found at i:104154437 original size:14 final size:14
Alignment explanation
Indices: 104154418--104154543 Score: 61
Period size: 14 Copynumber: 9.1 Consensus size: 14
104154408 TTCTTCTTCC
104154418 AAATATTTAATTAT
1 AAATATTTAATTAT
104154432 AAATATTTAATTAT
1 AAATATTTAATTAT
* *
104154446 -TATATTTAAATAATT
1 AAATATTT-AATTA-T
*
104154461 AAATA--TAGTT-T
1 AAATATTTAATTAT
*
104154472 ATATATTCTAA-T-T
1 AAATATT-TAATTAT
*
104154485 AAAT-TTAATAAATAGT
1 AAATATT--TAATTA-T
* *
104154501 TAATATCTAATTAT
1 AAATATTTAATTAT
104154515 AAATATTTAATTAT
1 AAATATTTAATTAT
* *
104154529 -TATATTTAAATAT
1 AAATATTTAATTAT
104154542 AA
1 AA
104154544 TTATATATTC
Statistics
Matches: 83, Mismatches: 17, Indels: 24
0.67 0.14 0.19
Matches are distributed among these distances:
11 5 0.06
12 2 0.02
13 27 0.33
14 35 0.42
15 6 0.07
16 7 0.08
17 1 0.01
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (14 bp):
AAATATTTAATTAT
Found at i:104154455 original size:21 final size:21
Alignment explanation
Indices: 104154431--104154552 Score: 84
Period size: 21 Copynumber: 6.0 Consensus size: 21
104154421 TATTTAATTA
104154431 TAAATATTTAATTATTATATT
1 TAAATATTTAATTATTATATT
*
104154452 TAAATAATTAA--A-TATAGTT
1 TAAATATTTAATTATTATA-TT
* *
104154471 TATATATTCTAATTAAATT-TA-A
1 TAAATATT-TAATT--ATTATATT
*
104154493 TAAATAGTTAA-TATCTA-ATT
1 TAAATATTTAATTAT-TATATT
104154513 ATAAATATTTAATTATTATATT
1 -TAAATATTTAATTATTATATT
104154535 TAAATA--TAATTA-TATATT
1 TAAATATTTAATTATTATATT
104154553 CTAATTAAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 29
0.68 0.07 0.25
Matches are distributed among these distances:
18 12 0.15
19 17 0.21
20 4 0.05
21 31 0.39
22 12 0.15
24 3 0.04
25 1 0.01
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TAAATATTTAATTATTATATT
Found at i:104154571 original size:83 final size:82
Alignment explanation
Indices: 104154419--104154585 Score: 230
Period size: 83 Copynumber: 2.2 Consensus size: 82
104154409 TCTTCTTCCA
* *
104154419 AATATTTAATTATAAATATTTAATTATTATATTTAAATAATTAAATATAGTTTATATATTCTAAT
1 AATATCTAATTATAAATATTTAATTATTATATTTAAATAATT-AATATAGTTTATAAATTCTAAT
104154484 TAAATTTAATAAATAGTT
65 TAAATTTAATAAATAGTT
104154502 AATATCTAATTATAAATATTTAATTATTATATTTAAAT-A-TAAT-TA---TAT--ATTCTAATT
1 AATATCTAATTATAAATATTTAATTATTATATTTAAATAATTAATATAGTTTATAAATTCTAATT
104154559 AAATTTAATAAAT--TT
66 AAATTTAATAAATAGTT
104154574 AATAT-TAATTAT
1 AATATCTAATTAT
104154586 TTAGAAATAT
Statistics
Matches: 83, Mismatches: 1, Indels: 12
0.86 0.01 0.12
Matches are distributed among these distances:
71 7 0.08
72 7 0.08
74 22 0.27
76 3 0.04
79 2 0.02
80 3 0.04
81 1 0.01
82 1 0.01
83 37 0.45
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (82 bp):
AATATCTAATTATAAATATTTAATTATTATATTTAAATAATTAATATAGTTTATAAATTCTAATT
AAATTTAATAAATAGTT
Found at i:104154583 original size:38 final size:39
Alignment explanation
Indices: 104154470--104154585 Score: 124
Period size: 38 Copynumber: 3.1 Consensus size: 39
104154460 TAAATATAGT
*
104154470 TTATATATTCTAATTAAATTTAATAAATAGTTAATATCTAA
1 TTATATATTCTAATTAAATTTAATAAAT--TTAATATATAA
104154511 TTATAAATATT-TAATT--A-TT-AT--ATTTAA-ATATAA
1 TTAT--ATATTCTAATTAAATTTAATAAATTTAATATATAA
104154544 TTATATATTCTAATTAAATTTAATAAATTTAATAT-TAA
1 TTATATATTCTAATTAAATTTAATAAATTTAATATATAA
104154582 TTAT
1 TTAT
104154586 TTAGAAATAT
Statistics
Matches: 64, Mismatches: 1, Indels: 23
0.73 0.01 0.26
Matches are distributed among these distances:
31 5 0.08
32 5 0.08
33 9 0.14
34 5 0.08
35 2 0.03
36 4 0.06
38 15 0.23
39 4 0.06
40 1 0.02
41 4 0.06
42 5 0.08
43 5 0.08
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.50
Consensus pattern (39 bp):
TTATATATTCTAATTAAATTTAATAAATTTAATATATAA
Found at i:104165092 original size:46 final size:47
Alignment explanation
Indices: 104165027--104165254 Score: 309
Period size: 46 Copynumber: 4.9 Consensus size: 47
104165017 TTATCTTTGA
* * * *
104165027 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
* * *
104165073 CATGTTGCCATGATATCTTTCAACCATGGTCTTATTC-TTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
*
104165119 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
* *
104165165 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACT-CA-TTTTCATAT
* *
104165214 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTT
104165255 CAGATCAGAG
Statistics
Matches: 163, Mismatches: 14, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
45 5 0.03
46 110 0.67
47 4 0.02
48 2 0.01
49 42 0.26
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
Found at i:104167267 original size:11 final size:11
Alignment explanation
Indices: 104167251--104167309 Score: 73
Period size: 11 Copynumber: 5.2 Consensus size: 11
104167241 CTTTATATAC
104167251 TAATAAAATAA
1 TAATAAAATAA
104167262 TAATAAAATAA
1 TAATAAAATAA
*
104167273 TAATAAAATATCT
1 TAATAAAATA--A
* *
104167286 TATTAAAATAT
1 TAATAAAATAA
104167297 TAATAAAATAA
1 TAATAAAATAA
104167308 TA
1 TA
104167310 TTTATCTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
11 33 0.79
13 9 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:104169904 original size:28 final size:28
Alignment explanation
Indices: 104169868--104169925 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
104169858 ATTCATTCAA
*
104169868 TTCTTAACAATGGAAACTTTCAAAACCT
1 TTCTCAACAATGGAAACTTTCAAAACCT
104169896 TTCTCAACAATGGAAACTTTCAAAACCT
1 TTCTCAACAATGGAAACTTTCAAAACCT
104169924 TT
1 TT
104169926 AATAGTTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (28 bp):
TTCTCAACAATGGAAACTTTCAAAACCT
Found at i:104174015 original size:16 final size:16
Alignment explanation
Indices: 104173977--104174018 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
104173967 TAAAGGATTA
*
104173977 TACAAAATCTTCAATTC
1 TACAAAATC-TCAACTC
*
104173994 TA-AAAATCTCAACTG
1 TACAAAATCTCAACTC
104174009 TACAAAATCT
1 TACAAAATCT
104174019 AGAATCAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 7 0.32
16 13 0.59
17 2 0.09
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.31
Consensus pattern (16 bp):
TACAAAATCTCAACTC
Found at i:104176947 original size:46 final size:47
Alignment explanation
Indices: 104176884--104177204 Score: 420
Period size: 46 Copynumber: 7.0 Consensus size: 47
104176874 TTCGACATGA
* * * * * *
104176884 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* ** * *** *
104176930 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* *
104176977 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
104177023 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
104177069 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* *
104177115 TGCCATGGTATCTTTTAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
104177161 TGCCATGGTATCTTTTAACCATGGTCTTACACATTTTC-TATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
104177205 AGAGCACACT
Statistics
Matches: 252, Mismatches: 18, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
46 212 0.84
47 40 0.16
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:104185000 original size:51 final size:51
Alignment explanation
Indices: 104184874--104185005 Score: 144
Period size: 51 Copynumber: 2.6 Consensus size: 51
104184864 ATATTGATAG
* *
104184874 AATGTGTAAGTATTGCA-GGCTAAATTTGTTAAATCAAGATCAAATTACTAA
1 AATGTGTAAATATTG-AGGGCTAAATTTGTTAAATCAAGACCAAATTACTAA
* * * * *
104184925 AATATATAAATGTT-ATGGGTTAAATATGTTAAATCAAGACCAAATTGAC-AA
1 AATGTGTAAATATTGA-GGGCTAAATTTGTTAAATCAAGACCAAATT-ACTAA
*
104184976 AATGTGTAAATTTTGAGGGCTAAATTTGTT
1 AATGTGTAAATATTGAGGGCTAAATTTGTT
104185006 TTTATAAAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
49 1 0.02
51 61 0.94
52 3 0.05
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.35
Consensus pattern (51 bp):
AATGTGTAAATATTGAGGGCTAAATTTGTTAAATCAAGACCAAATTACTAA
Found at i:104193859 original size:2 final size:2
Alignment explanation
Indices: 104193846--104193890 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
104193836 ATGAAAATTT
*
104193846 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
104193888 TC T
1 TC T
104193891 GTGTGTTTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:104194465 original size:30 final size:29
Alignment explanation
Indices: 104194429--104194487 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
104194419 TTAAATAACA
104194429 AGCAAATGTCTCTAAAACAATAACAAAATT
1 AGCAAATGTCTCTAAAACAATAA-AAAATT
* *
104194459 AGCAAATGTCTTTAAAATAATAAAAAATT
1 AGCAAATGTCTCTAAAACAATAAAAAATT
104194488 TTAACAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (29 bp):
AGCAAATGTCTCTAAAACAATAAAAAATT
Found at i:104195412 original size:33 final size:33
Alignment explanation
Indices: 104195375--104195477 Score: 97
Period size: 33 Copynumber: 3.2 Consensus size: 33
104195365 TATAAAATTA
104195375 TTTAACTACATAAACAATATAATGGTTTTGCCT
1 TTTAACTACATAAACAATATAATGGTTTTGCCT
**** **
104195408 TTTAA-T--ATAATGGTTACTTAATGGTTTT-ATT
1 TTTAACTACATAAACAATA--TAATGGTTTTGCCT
104195439 ATTTAACTACATAAACAATATAATGGTTTTGCCT
1 -TTTAACTACATAAACAATATAATGGTTTTGCCT
104195473 TTTAA
1 TTTAA
104195478 TATAATGGTT
Statistics
Matches: 51, Mismatches: 12, Indels: 14
0.66 0.16 0.18
Matches are distributed among these distances:
30 6 0.12
31 1 0.02
32 16 0.31
33 21 0.41
34 1 0.02
35 6 0.12
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.45
Consensus pattern (33 bp):
TTTAACTACATAAACAATATAATGGTTTTGCCT
Found at i:104195430 original size:32 final size:32
Alignment explanation
Indices: 104195394--104195509 Score: 112
Period size: 32 Copynumber: 3.6 Consensus size: 32
104195384 ATAAACAATA
*
104195394 TAATGGTTTTGCCTTTTAATATAATGGTTACT
1 TAATGGTTTTGACTTTTAATATAATGGTTACT
* ****
104195426 TAATGGTTTT-ATTATTTAACTACATAAACAATA--
1 TAATGGTTTTGACT-TTTAA-T--ATAATGGTTACT
*
104195459 TAATGGTTTTGCCTTTTAATATAATGGTTACT
1 TAATGGTTTTGACTTTTAATATAATGGTTACT
104195491 TAATGGTTTTGACTTTTAA
1 TAATGGTTTTGACTTTTAA
104195510 CTTTAGAAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 14
0.70 0.14 0.15
Matches are distributed among these distances:
30 6 0.09
31 1 0.02
32 34 0.53
33 16 0.25
34 1 0.02
35 6 0.09
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (32 bp):
TAATGGTTTTGACTTTTAATATAATGGTTACT
Found at i:104195447 original size:65 final size:65
Alignment explanation
Indices: 104195371--104195500 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
104195361 GAAATATAAA
104195371 ATTATTTAACTACATAAACAATATAATGGTTTTGCCTTTTAATATAATGGTTACTTAATGGTTTT
1 ATTATTTAACTACATAAACAATATAATGGTTTTGCCTTTTAATATAATGGTTACTTAATGGTTTT
104195436 ATTATTTAACTACATAAACAATATAATGGTTTTGCCTTTTAATATAATGGTTACTTAATGGTTTT
1 ATTATTTAACTACATAAACAATATAATGGTTTTGCCTTTTAATATAATGGTTACTTAATGGTTTT
104195501 GACTTTTAAC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (65 bp):
ATTATTTAACTACATAAACAATATAATGGTTTTGCCTTTTAATATAATGGTTACTTAATGGTTTT
Found at i:104198406 original size:31 final size:31
Alignment explanation
Indices: 104198368--104198485 Score: 146
Period size: 31 Copynumber: 3.8 Consensus size: 31
104198358 ACAAATGACA
* *
104198368 AGTGAAAAGTGGTAGGTTCTGCTACCTGATC
1 AGTGAAAAATGGTAGGTTCGGCTACCTGATC
* * *
104198399 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAATGGTAGGTTCGGCTACCTGATC
* *
104198430 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAATGGTAGGTTCGGCTACCTGATC
* * *
104198461 AGTGAATAGTGGTAGTTTCGGCTAC
1 AGTGAAAAATGGTAGGTTCGGCTAC
104198486 AAGTGACAAG
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAATGGTAGGTTCGGCTACCTGATC
Found at i:104198571 original size:47 final size:47
Alignment explanation
Indices: 104198502--104198658 Score: 158
Period size: 47 Copynumber: 3.3 Consensus size: 47
104198492 CAAGTGATTT
* *
104198502 CTGTATAAGACAATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGATA
* * * *
104198549 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGATA
* * * *
104198596 CATG--TAAGACCATAGCTGAGCTATGGCATCGATATGTGATATATGATTA
1 C-TGTATAAGACCATATCTGGGATATGGCATCG--GTGTGATATATGA-TA
*
104198645 C-GTGTAAGACCATA
1 CTGTATAAGACCATA
104198659 GTTGGACTAT
Statistics
Matches: 90, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
46 23 0.26
47 43 0.48
48 12 0.13
49 12 0.13
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGATA
Found at i:104198621 original size:46 final size:49
Alignment explanation
Indices: 104198554--104198659 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 49
104198544 TGCTACTGTA
* * * *
104198554 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATT-CATG
1 TAAGACCATAGCTGAGATATGGCATCGATATGAGATATATGATTACATG
* * *
104198600 TAAGACCATAGCTGAGCTATGGCATCGATATGTGATATATGATTACGTG
1 TAAGACCATAGCTGAGATATGGCATCGATATGAGATATATGATTACATG
104198649 TAAGACCATAG
1 TAAGACCATAG
104198660 TTGGACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
46 23 0.46
47 1 0.02
48 12 0.24
49 14 0.28
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (49 bp):
TAAGACCATAGCTGAGATATGGCATCGATATGAGATATATGATTACATG
Found at i:104198692 original size:42 final size:42
Alignment explanation
Indices: 104198632--104198711 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
104198622 CATCGATATG
** *
104198632 TGATATATGATTACGTGTAAGACCATAGTTGGACTATGACAT
1 TGATATATGAAGACGTGTAAGACCATAGTTGAACTATGACAT
*
104198674 TGATATATGAAGATGTGTAAGACCATAGTTGAACTATG
1 TGATATATGAAGACGTGTAAGACCATAGTTGAACTATG
104198712 GCATCAAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.33
Consensus pattern (42 bp):
TGATATATGAAGACGTGTAAGACCATAGTTGAACTATGACAT
Found at i:104203141 original size:21 final size:22
Alignment explanation
Indices: 104203104--104203146 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
104203094 AAATAGGGAG
104203104 AAAACAACAAGAAAATAACATT
1 AAAACAACAAGAAAATAACATT
104203126 AAAACAACAA-AAAATAACATT
1 AAAACAACAAGAAAATAACATT
104203147 TTTTTGTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.70, C:0.14, G:0.02, T:0.14
Consensus pattern (22 bp):
AAAACAACAAGAAAATAACATT
Found at i:104213714 original size:17 final size:17
Alignment explanation
Indices: 104213689--104213724 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
104213679 TAAATTTTTT
104213689 TATATAAAAAT-TTAAAA
1 TATA-AAAAATATTAAAA
104213706 TATAAAAAATATTAAAA
1 TATAAAAAATATTAAAA
104213723 TA
1 TA
104213725 AATGTTTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAAAAAATATTAAAA
Found at i:104218206 original size:12 final size:13
Alignment explanation
Indices: 104218189--104218223 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
104218179 CTTTGTTTAA
104218189 TTTATTTATTA-T
1 TTTATTTATTATT
*
104218201 TTTATTTATCATT
1 TTTATTTATTATT
104218214 TTTATTTATT
1 TTTATTTATT
104218224 TAATATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTATTTATTATT
Found at i:104218231 original size:17 final size:17
Alignment explanation
Indices: 104218191--104218232 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
104218181 TTGTTTAATT
104218191 TATTTATTATTTTATTTA
1 TATTT-TTATTTTATTTA
104218209 TCATTTTTA-TTTATTTAA
1 T-ATTTTTATTTTATTT-A
104218227 TATTTT
1 TATTTT
104218233 AATTCTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 12 0.55
18 6 0.27
19 4 0.18
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTTATTTTATTTA
Found at i:104223811 original size:30 final size:30
Alignment explanation
Indices: 104223765--104223886 Score: 190
Period size: 30 Copynumber: 4.0 Consensus size: 30
104223755 TTTTATTATG
*
104223765 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
104223796 CCAATATTTGATACCCATATATTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
104223826 CCAATATTTGATACACATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
104223856 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
104223886 C
1 C
104223887 TATAAATATG
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 77 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:104223817 original size:15 final size:15
Alignment explanation
Indices: 104223775--104223882 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
104223765 CCAATATCTC
*
104223775 GATACCCATATCTTT
1 GATACCCATATATTT
**
104223790 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
104223805 GATACCCATATATTT
1 GATACCCATATATTT
**
104223820 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
* *
104223835 GATACACATATCTTT
1 GATACCCATATATTT
**
104223850 GACTTTCCAT-TATTT
1 GA-TACCCATATATTT
*
104223865 GATACCCATATCTTT
1 GATACCCATATATTT
104223880 GAT
1 GAT
104223883 TTTCTATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 12 0.17
15 45 0.65
16 12 0.17
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:104228378 original size:49 final size:49
Alignment explanation
Indices: 104228261--104228452 Score: 314
Period size: 49 Copynumber: 3.9 Consensus size: 49
104228251 ATGTGAACAT
104228261 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATC-GTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
104228310 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
104228359 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
104228408 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
104228453 AGAAAACGAA
Statistics
Matches: 136, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
48 40 0.29
49 96 0.71
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:104235022 original size:15 final size:15
Alignment explanation
Indices: 104234977--104235084 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
104234967 CCAATATCTC
104234977 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
104234992 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
104235007 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
104235022 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
*
104235037 GATACACATATCTTT
1 GATACCCATATCTTT
** *
104235052 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
*
104235067 AATACCCATATCTTT
1 GATACCCATATCTTT
104235082 GAT
1 GAT
104235085 TTTCCATAAA
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 12 0.18
15 41 0.63
16 12 0.18
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:104235091 original size:30 final size:30
Alignment explanation
Indices: 104234967--104235090 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
104234957 TTTTATTATG
*
104234967 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
104234998 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
104235028 CCAATATTTGATACACATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
104235058 CCATTATTTAATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
104235088 CCA
1 CCA
104235091 TAAATATGGA
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 80 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:104240007 original size:47 final size:47
Alignment explanation
Indices: 104239938--104240027 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
104239928 CTTTTGCTGC
*
104239938 TATCAATATGTCATCAACATAGAGAAGTAGATACACAAAAGAATCGT
1 TATCAATATGTCATCAACATAGAAAAGTAGATACACAAAAGAATCGT
104239985 TATCAATATGTCATCAACATAGAAAAGTAGATACACAAAAGAA
1 TATCAATATGTCATCAACATAGAAAAGTAGATACACAAAAGAA
104240028 CCATCACTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.50, C:0.14, G:0.13, T:0.22
Consensus pattern (47 bp):
TATCAATATGTCATCAACATAGAAAAGTAGATACACAAAAGAATCGT
Found at i:104249188 original size:17 final size:17
Alignment explanation
Indices: 104249162--104249198 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
104249152 TCTTCACATT
* *
104249162 AAAAATGAAAAAGAAAA
1 AAAAAAGAAAAACAAAA
104249179 AAAAAAGAAAAACAAAA
1 AAAAAAGAAAAACAAAA
104249196 AAA
1 AAA
104249199 CAGACATGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.86, C:0.03, G:0.08, T:0.03
Consensus pattern (17 bp):
AAAAAAGAAAAACAAAA
Found at i:104251884 original size:57 final size:57
Alignment explanation
Indices: 104251822--104251938 Score: 234
Period size: 57 Copynumber: 2.1 Consensus size: 57
104251812 GAAAGATTAA
104251822 AATAAAAATTAACCATTTTAAGGATTAAAAGGTAACTTTAATCCCGCTTTAACATAT
1 AATAAAAATTAACCATTTTAAGGATTAAAAGGTAACTTTAATCCCGCTTTAACATAT
104251879 AATAAAAATTAACCATTTTAAGGATTAAAAGGTAACTTTAATCCCGCTTTAACATAT
1 AATAAAAATTAACCATTTTAAGGATTAAAAGGTAACTTTAATCCCGCTTTAACATAT
104251936 AAT
1 AAT
104251939 TTTACAGATT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (57 bp):
AATAAAAATTAACCATTTTAAGGATTAAAAGGTAACTTTAATCCCGCTTTAACATAT
Found at i:104252730 original size:30 final size:30
Alignment explanation
Indices: 104252694--104252751 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
104252684 GGTAAAAATT
* *
104252694 CGAAAAAGTAATTAAAATTTGAGTTAAACA
1 CGAAAAAGTAATTAAAATTCGAGATAAACA
104252724 CGAAAAAGTAATTAAAATTCGAGATAAA
1 CGAAAAAGTAATTAAAATTCGAGATAAA
104252752 TTCAAAGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.24
Consensus pattern (30 bp):
CGAAAAAGTAATTAAAATTCGAGATAAACA
Found at i:104261570 original size:31 final size:32
Alignment explanation
Indices: 104261535--104261603 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
104261525 AAGGTTCAAC
* ** *
104261535 AATTTATATG-GATAAATTTTTAAAAATTAAT
1 AATTTATATGTAATAAATTAATAAAAATAAAT
104261566 AATTTATATGTAATAAATTAATAAAAATAAAT
1 AATTTATATGTAATAAATTAATAAAAATAAAT
104261598 AATTTA
1 AATTTA
104261604 AATATGATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 10 0.30
32 23 0.70
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (32 bp):
AATTTATATGTAATAAATTAATAAAAATAAAT
Found at i:104268063 original size:9 final size:9
Alignment explanation
Indices: 104268028--104268065 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
104268018 TCTTTTATTT
104268028 TTAAAATT-
1 TTAAAATTA
104268036 TTAAAATTCA
1 TTAAAATT-A
*
104268046 TTAACATTA
1 TTAAAATTA
104268055 TTAAAATTA
1 TTAAAATTA
104268064 TT
1 TT
104268066 TGATTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 8 0.31
9 11 0.42
10 7 0.27
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (9 bp):
TTAAAATTA
Found at i:104269138 original size:18 final size:18
Alignment explanation
Indices: 104269111--104269145 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
104269101 TTGCTATGTT
104269111 AATTCAAATCCGAATCTA
1 AATTCAAATCCGAATCTA
*
104269129 AATTCGAATCCGAATCT
1 AATTCAAATCCGAATCT
104269146 TTATTTTTCT
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:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (18 bp):
AATTCAAATCCGAATCTA
Found at i:104276277 original size:32 final size:32
Alignment explanation
Indices: 104276241--104276318 Score: 93
Period size: 38 Copynumber: 2.2 Consensus size: 32
104276231 AAGGTATGTG
*
104276241 ATCTGTTGGAATCCCTATATTTAAGGATAGAA
1 ATCTGTTGGAATCCCTATAATTAAGGATAGAA
104276273 ATCTGATGGTATTGGAATCCCTATAATTAAGGATAGAA
1 ATC---T-G--TTGGAATCCCTATAATTAAGGATAGAA
104276311 ATCTGTTG
1 ATCTGTTG
104276319 TGATCTCTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
32 6 0.15
34 1 0.03
35 2 0.05
36 1 0.03
38 29 0.74
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (32 bp):
ATCTGTTGGAATCCCTATAATTAAGGATAGAA
Found at i:104283517 original size:48 final size:48
Alignment explanation
Indices: 104283445--104283540 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
104283435 AGCAGAAGAT
104283445 AGCTGAGATTCCTTCTCCGACTAACGATTCTTCAAGGACAGCATATGG
1 AGCTGAGATTCCTTCTCCGACTAACGATTCTTCAAGGACAGCATATGG
*
104283493 AGCTGAGATTCCTTCTCCGGCTAACGATTCTTCAAGGACAGCATATGG
1 AGCTGAGATTCCTTCTCCGACTAACGATTCTTCAAGGACAGCATATGG
104283541 TTTTAGCTCC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (48 bp):
AGCTGAGATTCCTTCTCCGACTAACGATTCTTCAAGGACAGCATATGG
Found at i:104301753 original size:4 final size:4
Alignment explanation
Indices: 104301731--104301789 Score: 55
Period size: 4 Copynumber: 13.5 Consensus size: 4
104301721 TCTCTTTTGG
* *
104301731 TTCT TTTT TTCT CTCT TTCT TTCT TTCT TTCTT TTCTT TTCTT TTCTT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC-T TTC-T TTC-T TTC-T
104301779 TTCTT TTCT TT
1 TTC-T TTCT TT
104301790 TCATTTTTCT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
4 26 0.52
5 24 0.48
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTCT
Found at i:104301768 original size:5 final size:5
Alignment explanation
Indices: 104301731--104301796 Score: 77
Period size: 5 Copynumber: 13.4 Consensus size: 5
104301721 TCTCTTTTGG
104301731 TTCTT TT-TT TCTCTCT TTC-T TTC-T TTC-T TTCTT TTCTT TTCTT TTCTT
1 TTCTT TTCTT T-TCT-T TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT
104301779 TTCTT TTCTT TTCATT TT
1 TTCTT TTCTT TTC-TT TT
104301797 TCTGTATTAA
Statistics
Matches: 56, Mismatches: 0, Indels: 9
0.86 0.00 0.14
Matches are distributed among these distances:
4 15 0.27
5 32 0.57
6 7 0.12
7 2 0.04
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (5 bp):
TTCTT
Found at i:104303328 original size:22 final size:22
Alignment explanation
Indices: 104303302--104303350 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
104303292 ATATCTAAAT
104303302 AATAACAATAAAATAGTAATAA
1 AATAACAATAAAATAGTAATAA
* * * *
104303324 TATAATAGTGAAATAGTAATAA
1 AATAACAATAAAATAGTAATAA
104303346 AATAA
1 AATAA
104303351 TGACAAAACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (22 bp):
AATAACAATAAAATAGTAATAA
Found at i:104314047 original size:22 final size:22
Alignment explanation
Indices: 104314022--104314066 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
104314012 TTTAATAAAA
104314022 AAAATATCTACA-AGATATTCCT
1 AAAATATCTACAGA-ATATTCCT
*
104314044 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAGAATATTCCT
104314066 A
1 A
104314067 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAGAATATTCCT
Found at i:104318276 original size:22 final size:22
Alignment explanation
Indices: 104318249--104318293 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
104318239 TTTTAATAAA
104318249 AAAATATCTACA-AGATATTCCT
1 AAAATATCTACAGA-ATATTCCT
*
104318271 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAGAATATTCCT
104318293 A
1 A
104318294 CACATACTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAGAATATTCCT
Found at i:104319196 original size:24 final size:23
Alignment explanation
Indices: 104319148--104319197 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 23
104319138 AATGACTCCT
* *
104319148 AATAAAATTCCTAATATGAAGGA
1 AATAAAATACCTAATATAAAGGA
104319171 AATAAAA-ACCTAATATAATAGAGA
1 AATAAAATACCTAATATAA-AG-GA
104319195 AAT
1 AAT
104319198 TAAGTAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 9 0.39
23 9 0.39
24 5 0.22
ACGTcount: A:0.58, C:0.08, G:0.10, T:0.24
Consensus pattern (23 bp):
AATAAAATACCTAATATAAAGGA
Found at i:104326170 original size:3 final size:3
Alignment explanation
Indices: 104326162--104326191 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
104326152 CAATTTTGTA
104326162 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
104326192 GATTATGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:104327992 original size:29 final size:29
Alignment explanation
Indices: 104327958--104328034 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 29
104327948 ATAAATGCTC
*
104327958 TAAAATAGTAACAAAATAAACCATATAACAA
1 TAAAATAGTAACAATATAAA-CA-ATAACAA
*
104327989 -AAATTA-T-ACAATATCAAACAATAACAA
1 TAAAATAGTAACAATAT-AAACAATAACAA
104328016 TAAAATAGTAACAATATAA
1 TAAAATAGTAACAATATAA
104328035 TAGCAACACC
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
27 7 0.18
28 13 0.33
29 7 0.18
30 12 0.31
ACGTcount: A:0.64, C:0.12, G:0.03, T:0.22
Consensus pattern (29 bp):
TAAAATAGTAACAATATAAACAATAACAA
Found at i:104329525 original size:29 final size:30
Alignment explanation
Indices: 104329462--104329527 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
104329452 ACGTAAATAG
* *
104329462 AATTGAACCAAATAAAAATTACACATATGA
1 AATTGCACAAAATAAAAATTACACATATGA
* *
104329492 AATTGCACAAAATTAAAATT-CATATAT-A
1 AATTGCACAAAATAAAAATTACACATATGA
104329520 ATATTGCA
1 A-ATTGCA
104329528 TATTGATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 2 0.06
29 12 0.39
30 17 0.55
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (30 bp):
AATTGCACAAAATAAAAATTACACATATGA
Found at i:104330618 original size:17 final size:16
Alignment explanation
Indices: 104330588--104330621 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
104330578 TTAAATGAGT
*
104330588 TTTATTAATTTTTTTA
1 TTTATTAATATTTTTA
104330604 TTTATTTAATATTTTTA
1 TTTA-TTAATATTTTTA
104330621 T
1 T
104330622 AATTTCATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTATTAATATTTTTA
Found at i:104330929 original size:17 final size:15
Alignment explanation
Indices: 104330897--104330927 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
104330887 AATAAAGATT
104330897 TATAATATATTTTAA
1 TATAATATATTTTAA
104330912 TATAATATA-TTTAA
1 TATAATATATTTTAA
104330926 TA
1 TA
104330928 ATTAAACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATAATATATTTTAA
Found at i:104331227 original size:27 final size:26
Alignment explanation
Indices: 104331197--104331248 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
104331187 TTAATTTGAT
* *
104331197 TCTTAATAATTTTTAATTAAATTAAAC
1 TCTTAA-AATTTTAAAATAAATTAAAC
*
104331224 TCTTAACATTTTAAAATAAATTAAA
1 TCTTAAAATTTTAAAATAAATTAAA
104331249 TTTGATGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (26 bp):
TCTTAAAATTTTAAAATAAATTAAAC
Found at i:104333340 original size:20 final size:20
Alignment explanation
Indices: 104333308--104333369 Score: 108
Period size: 19 Copynumber: 3.1 Consensus size: 20
104333298 GACGAAAAAA
104333308 TATATATAAAAAAAGTGAATT
1 TATATA-AAAAAAAGTGAATT
104333329 TATATAAAAAAAA-TGAATT
1 TATATAAAAAAAAGTGAATT
104333348 TATATAAAAAAAAGTGAATT
1 TATATAAAAAAAAGTGAATT
104333368 TA
1 TA
104333370 AGTTATGTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.47
20 15 0.38
21 6 0.15
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (20 bp):
TATATAAAAAAAAGTGAATT
Found at i:104335395 original size:7 final size:7
Alignment explanation
Indices: 104335378--104335420 Score: 50
Period size: 8 Copynumber: 5.7 Consensus size: 7
104335368 TATTTTTATT
104335378 TTTAAGAA
1 TTTAA-AA
*
104335386 TTTAATA
1 TTTAAAA
104335393 TTTAAAAA
1 TTT-AAAA
104335401 TTTAAAAA
1 TTT-AAAA
104335409 TTTAAAA
1 TTTAAAA
104335416 TTTAA
1 TTTAA
104335421 GTTACATTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
7 13 0.41
8 19 0.59
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (7 bp):
TTTAAAA
Found at i:104335402 original size:15 final size:15
Alignment explanation
Indices: 104335378--104335420 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
104335368 TATTTTTATT
* *
104335378 TTTAAGAATTTAATA
1 TTTAAAAATTTAAAA
104335393 TTTAAAAATTTAAAAA
1 TTTAAAAATTT-AAAA
104335409 TTT-AAAATTTAA
1 TTTAAAAATTTAA
104335421 GTTACATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 2 0.08
15 17 0.68
16 6 0.24
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
TTTAAAAATTTAAAA
Found at i:104350076 original size:44 final size:44
Alignment explanation
Indices: 104349985--104350068 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
104349975 TCAGTTCCGG
*
104349985 TTTTTTTGGTTTCAGACCATTTCAGATTAGAATCAGTTTCAGGT
1 TTTTTTTGGATTCAGACCATTTCAGATTAGAATCAGTTTCAGGT
* **
104350029 TTTTTTTGGATTCAGACCGTTTTGGATTA-ATATCAGTTTC
1 TTTTTTTGGATTCAGACCATTTCAGATTAGA-ATCAGTTTC
104350069 CATTTTTTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 1 0.03
44 34 0.97
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.48
Consensus pattern (44 bp):
TTTTTTTGGATTCAGACCATTTCAGATTAGAATCAGTTTCAGGT
Found at i:104353701 original size:31 final size:31
Alignment explanation
Indices: 104353666--104353725 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
104353656 CTTAACGACC
* *
104353666 CAATGACTTAAATAAAAATTTTTGAATAGCT
1 CAATGACTTAAATAAAAACTTTCGAATAGCT
*
104353697 CAATGACTTACATAAAAACTTTCGAATAG
1 CAATGACTTAAATAAAAACTTTCGAATAG
104353726 TTTAATGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTCGAATAGCT
Found at i:104372294 original size:22 final size:25
Alignment explanation
Indices: 104372269--104372317 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
104372259 TTTACTGTTG
104372269 TTTGCTA-T-TGTT-TTGTTATTAT
1 TTTGCTACTATGTTATTGTTATTAT
*
104372291 TTTGCTACTATTTTATTGTTATTAT
1 TTTGCTACTATGTTATTGTTATTAT
104372316 TT
1 TT
104372318 GAATAACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 1 0.04
24 3 0.13
25 12 0.52
ACGTcount: A:0.16, C:0.06, G:0.10, T:0.67
Consensus pattern (25 bp):
TTTGCTACTATGTTATTGTTATTAT
Found at i:104377560 original size:13 final size:15
Alignment explanation
Indices: 104377542--104377574 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
104377532 AAATTAAATT
104377542 ATTAATTCAA-T-AA
1 ATTAATTCAACTCAA
104377555 ATTAATTCAACTCAA
1 ATTAATTCAACTCAA
104377570 ATTAA
1 ATTAA
104377575 CTCGTCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 1 0.06
15 7 0.39
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
ATTAATTCAACTCAA
Found at i:104385744 original size:15 final size:15
Alignment explanation
Indices: 104385724--104385756 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
104385714 AAGTTCCTTT
104385724 GATTAGAAAATGCTC
1 GATTAGAAAATGCTC
104385739 GATTAGAAAATGCTC
1 GATTAGAAAATGCTC
104385754 GAT
1 GAT
104385757 AAATATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.27
Consensus pattern (15 bp):
GATTAGAAAATGCTC
Found at i:104390747 original size:27 final size:27
Alignment explanation
Indices: 104390705--104390771 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
104390695 GCAGTTGAGT
*
104390705 AGTTAGTTTGTTAAAGAAAGGTTAAAGA
1 AGTTAGTTAGTTAAAGAAA-GTTAAAGA
* *
104390733 AGTTAG-TAGTTAAAGATAGTTACAGA
1 AGTTAGTTAGTTAAAGAAAGTTAAAGA
*
104390759 AGTTTGTTAGTTA
1 AGTTAGTTAGTTA
104390772 GCAACTTTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 12 0.35
27 16 0.47
28 6 0.18
ACGTcount: A:0.39, C:0.01, G:0.24, T:0.36
Consensus pattern (27 bp):
AGTTAGTTAGTTAAAGAAAGTTAAAGA
Found at i:104394161 original size:19 final size:19
Alignment explanation
Indices: 104394137--104394179 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
104394127 AAGGAAGAAG
*
104394137 AATAAAATTAAAAATTAAA-
1 AATAAAAGT-AAAATTAAAT
104394156 AATAAAAGTAAAATTAAAT
1 AATAAAAGTAAAATTAAAT
104394175 AATAA
1 AATAA
104394180 TAATAATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAAAAGTAAAATTAAAT
Found at i:104395699 original size:46 final size:44
Alignment explanation
Indices: 104395640--104395754 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
104395630 ACAGGACATA
* *
104395640 ACAGAAATGAGCCATGTAAGTCCATATTAAAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
104395686 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
104395730 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
104395755 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:104395735 original size:44 final size:45
Alignment explanation
Indices: 104395640--104395773 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
104395630 ACAGGACATA
* *
104395640 ACAGAAATGAGCCATGTAAGTCCATATTAAAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT-AAAATATGGCATTGGAG
* *
104395686 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
104395730 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
104395774 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:104397977 original size:22 final size:23
Alignment explanation
Indices: 104397935--104397984 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
104397925 AAGCTTACAG
*
104397935 AGAATGTCAGTATTAGGGACAA-
1 AGAATGTCAGTACTAGGGACAAC
104397957 AGAATGTCAGTACT-GGAGACAAC
1 AGAATGTCAGTACTAGG-GACAAC
104397980 AGAAT
1 AGAAT
104397985 CAAAACAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 2 0.08
22 18 0.72
23 5 0.20
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.20
Consensus pattern (23 bp):
AGAATGTCAGTACTAGGGACAAC
Found at i:104400869 original size:21 final size:21
Alignment explanation
Indices: 104400840--104400887 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
104400830 AAATTATTTA
104400840 TAAAAT-ATA-AATTTTA-AT
1 TAAAATAATATAATTTTATAT
* *
104400858 TAAAATAATATATTTTTATTT
1 TAAAATAATATAATTTTATAT
104400879 TAAAATAAT
1 TAAAATAAT
104400888 GATATGAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 6 0.24
19 3 0.12
20 6 0.24
21 10 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAAAATAATATAATTTTATAT
Found at i:104401326 original size:18 final size:20
Alignment explanation
Indices: 104401292--104401334 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
104401282 TTAAAGAAAT
104401292 TATTA-AAATAAAATTATA-
1 TATTATAAATAAAATTATAC
*
104401310 TATTATAAAT-AAGTTATAC
1 TATTATAAATAAAATTATAC
104401329 TATTAT
1 TATTAT
104401335 GATAATACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
TATTATAAATAAAATTATAC
Found at i:104403830 original size:6 final size:7
Alignment explanation
Indices: 104403813--104403839 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
104403803 CATTTATGCT
104403813 TTTTTTC
1 TTTTTTC
104403820 TTTTTTC
1 TTTTTTC
104403827 TTTTTTC
1 TTTTTTC
104403834 TTTTTT
1 TTTTTT
104403840 ATGAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:104405434 original size:21 final size:20
Alignment explanation
Indices: 104405392--104405434 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
104405382 CAGTTTGCTC
* * *
104405392 TTGTAAGGGAATTTGAATAT
1 TTGTAAGGGAACTTCAACAT
104405412 TTGTAATGGGAACTTCAACAT
1 TTGTAA-GGGAACTTCAACAT
104405433 TT
1 TT
104405435 ACAATAGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGTAAGGGAACTTCAACAT
Found at i:104409942 original size:41 final size:40
Alignment explanation
Indices: 104409887--104409983 Score: 140
Period size: 41 Copynumber: 2.4 Consensus size: 40
104409877 AAATTGGCAC
*
104409887 CCAGTGCCTCATCGAATTAATCCAAAGTAAATAATTAACA
1 CCAGTGCCTTATCGAATTAATCCAAAGTAAATAATTAACA
* *
104409927 CCTAGTGCCTTATCGAATTAATCCGAAGTAAATAATTGACA
1 CC-AGTGCCTTATCGAATTAATCCAAAGTAAATAATTAACA
*
104409968 TCCAGTGTCTTATCGA
1 -CCAGTGCCTTATCGA
104409984 CTCGAGGTCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 2 0.04
41 47 0.92
42 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (40 bp):
CCAGTGCCTTATCGAATTAATCCAAAGTAAATAATTAACA
Found at i:104411182 original size:10 final size:10
Alignment explanation
Indices: 104411167--104411212 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
104411157 ATTCTAAAAT
104411167 ATAAATACAA-
1 ATAAATA-AAG
104411177 ATAAATAAAG
1 ATAAATAAAG
*
104411187 ATAATTAAAG
1 ATAAATAAAG
*
104411197 ATAAATAAAA
1 ATAAATAAAG
104411207 ATAAAT
1 ATAAAT
104411213 CCTAAATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
9 2 0.06
10 30 0.94
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (10 bp):
ATAAATAAAG
Found at i:104411190 original size:20 final size:20
Alignment explanation
Indices: 104411161--104411212 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
104411151 AATTAAATTC
104411161 TAAAATATAAATACAA-ATAAA
1 TAAAA-ATAAATA-AAGATAAA
* *
104411182 TAAAGATAATTAAAGATAAA
1 TAAAAATAAATAAAGATAAA
104411202 TAAAAATAAAT
1 TAAAAATAAAT
104411213 CCTAAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.08
20 20 0.77
21 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (20 bp):
TAAAAATAAATAAAGATAAA
Found at i:104413752 original size:46 final size:46
Alignment explanation
Indices: 104413699--104413871 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
104413689 TTGAGCATCT
* *
104413699 GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * *
104413745 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* * *
104413792 GAGCTCGTTGAGTT-ATGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGA-GTCCGAGTTCACTTATGGATGCGAATGTCC
* *
104413838 GAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
104413872 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.57
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:104413852 original size:93 final size:93
Alignment explanation
Indices: 104413693--104413863 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
104413683 GGATGGTTGA
* * * **
104413693 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
104413758 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* *
104413786 GCATCCGAGCTCGTTGAGTT-ATGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGA-GTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
104413850 TTGAGTCCAAGTTC
65 TTGAGTCCAAGTTC
104413864 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 1 0.01
93 68 0.99
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:104419625 original size:17 final size:18
Alignment explanation
Indices: 104419605--104419638 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
104419595 AATCGAATTG
104419605 AAATTGAG-AAATTAAAT
1 AAATTGAGAAAATTAAAT
*
104419622 AAATTGTGAAAATTAAA
1 AAATTGAGAAAATTAAA
104419639 ATAGAGCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (18 bp):
AAATTGAGAAAATTAAAT
Found at i:104420384 original size:10 final size:10
Alignment explanation
Indices: 104420357--104420394 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
104420347 TTAAATTCTA
*
104420357 AAAGATAAAT
1 AAAGATAATT
104420367 ACAA-ATAATT
1 A-AAGATAATT
104420377 AAAGATAATT
1 AAAGATAATT
104420387 AAAGATAA
1 AAAGATAA
104420395 ACAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAATT
Found at i:104421650 original size:22 final size:23
Alignment explanation
Indices: 104421607--104421650 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
104421597 AACCCTAGTT
*
104421607 TTTTATCCTTTCTTTTTCTTTCC
1 TTTTATCCTTTCTATTTCTTTCC
104421630 TTTT-TCC-TTCTATTTCGTTTC
1 TTTTATCCTTTCTATTTC-TTTC
104421651 AACTTTCTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.05, C:0.25, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTTATCCTTTCTATTTCTTTCC
Found at i:104421768 original size:14 final size:14
Alignment explanation
Indices: 104421749--104421775 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
104421739 ATTATTATGA
104421749 AAAATAAAATAAAT
1 AAAATAAAATAAAT
104421763 AAAATAAAATAAA
1 AAAATAAAATAAA
104421776 GAACACACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:104426889 original size:30 final size:30
Alignment explanation
Indices: 104426829--104426909 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
104426819 TGGTACATTA
* * * *
104426829 CTCACACAAGCTTATAGTATATCGAGGTTG
1 CTCACACAAGCTGACATTATAACGAGGTTG
104426859 CTCACACAAGCTGACATTATAAC-AGAGTTG
1 CTCACACAAGCTGACATTATAACGAG-GTTG
*
104426889 CTCGCACAAGCTGACATTATA
1 CTCACACAAGCTGACATTATA
104426910 TCAATGTTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
29 2 0.04
30 43 0.96
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (30 bp):
CTCACACAAGCTGACATTATAACGAGGTTG
Found at i:104429002 original size:22 final size:22
Alignment explanation
Indices: 104428977--104429020 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
104428967 TAGTCATATA
104428977 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
104428999 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
104429021 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:104429056 original size:13 final size:14
Alignment explanation
Indices: 104429040--104429081 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
104429030 TTTCAATTTT
104429040 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
104429053 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
104429068 ATTTTAAATAATAT
1 ATTTT-AATAATAT
104429082 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:104429066 original size:16 final size:16
Alignment explanation
Indices: 104429044--104429080 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
104429034 AATTTTATTT
104429044 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
104429061 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
104429076 TAATA
1 TAATA
104429081 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:104434332 original size:31 final size:31
Alignment explanation
Indices: 104434267--104434332 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
104434257 TAATATATTT
* * *
104434267 TATGTTTGTTTAAATTTGGCCCGACTTGAAA
1 TATGTTTGTTTAAATCTGACCCGACCTGAAA
* *
104434298 TATGTTTGTTTAAATCTGACCCGTCCTGACA
1 TATGTTTGTTTAAATCTGACCCGACCTGAAA
104434329 TATG
1 TATG
104434333 GGCTTAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (31 bp):
TATGTTTGTTTAAATCTGACCCGACCTGAAA
Found at i:104436581 original size:9 final size:9
Alignment explanation
Indices: 104436569--104436776 Score: 53
Period size: 9 Copynumber: 22.7 Consensus size: 9
104436559 AAAAATAACA
104436569 AAAAATTAT
1 AAAAATTAT
104436578 -AAAA--AT
1 AAAAATTAT
104436584 AAAAA-TAT
1 AAAAATTAT
*
104436592 TAAAATTAAT
1 AAAAATT-AT
* *
104436602 GTAAACTTACT
1 -AAAAATTA-T
104436613 A-AAATTAT
1 AAAAATTAT
*
104436621 AAACATTTAT
1 AAA-AATTAT
*
104436631 AAACATTA-
1 AAAAATTAT
* *
104436639 CAAAATATAA
1 AAAAAT-TAT
104436649 AAAAATTAT
1 AAAAATTAT
104436658 -AAAATTAAT
1 AAAAATT-AT
*
104436667 AAAACTTATT
1 AAAAATTA-T
104436677 CAAAACATT-T
1 -AAAA-ATTAT
104436687 -AAAATTA-
1 AAAAATTAT
*
104436694 AAAAATGA-
1 AAAAATTAT
* *
104436702 ATTAAATTCTT
1 A-AAAATT-AT
104436713 AATAAATT-T
1 AA-AAATTAT
104436722 AAAAATTAT
1 AAAAATTAT
*
104436731 AAAATAATATT
1 AAAA-ATTA-T
*
104436742 AAAAAATAT
1 AAAAATTAT
*
104436751 TAAAATTGAT
1 AAAAATT-AT
*
104436761 ATAAACTTAT
1 A-AAAATTAT
104436771 AAAAAT
1 AAAAAT
104436777 AAAAATAAAA
Statistics
Matches: 149, Mismatches: 24, Indels: 52
0.66 0.11 0.23
Matches are distributed among these distances:
6 2 0.01
7 7 0.05
8 37 0.25
9 39 0.26
10 35 0.23
11 27 0.18
12 2 0.01
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Done.