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 45 of 410
Found at i:11505447 original size:12 final size:12
Alignment explanation
Indices: 11505430--11505464 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
11505420 TTCAAAAAAG
11505430 AAGAAGAAGAAA
1 AAGAAGAAGAAA
11505442 AAGAAGAAG-AA
1 AAGAAGAAGAAA
11505453 AAGAA-AAGAAA
1 AAGAAGAAGAAA
11505464 A
1 A
11505465 GGAGAGGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 10 0.45
12 9 0.41
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AAGAAGAAGAAA
Found at i:11507050 original size:130 final size:131
Alignment explanation
Indices: 11506696--11507236 Score: 870
Period size: 131 Copynumber: 4.1 Consensus size: 131
11506686 TGAAACAGAA
*
11506696 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCAAAGACGACGAATCTTGGCTTCCTGA
1 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
* *
11506761 AGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAAGATGTAGTGGAGTAGACTGAATA
66 AGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAAGATGTAGTGGAGTAGGCTAAATA
11506826 T
131 T
** * * *
11506827 TGTAGATCTTGTCTCCCTGAAGTTATAGTGGGGCGAATCGAAGAAGACGAATCTTGGCTTCTTGA
1 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
* *
11506892 AGTTGCAATGAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAAGATGTAGTAGAGTAGGCTAAATA
66 AGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAAGATGTAGTGGAGTAGGCTAAATA
11506957 T
131 T
*
11506958 TGTAGATCTTGTCTCCC-GAAGTTGTAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
1 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
* *
11507022 AGTTGCAGTGAAGCAAATTTAAGCAAGTCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAATA
66 AGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAAGATGTAGTGGAGTAGGCTAAATA
11507087 T
131 T
*
11507088 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGAAAATCGAAGACGACGAATCTTGGCTTCCTGA
1 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
* *
11507153 AGTTGCAGTGAAGCAGATTTAAGCCACCA-TCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGA
66 AGTTGCAGTGAAGCAGATTTAAG-CA--AGTCCTAGCTCCCTAAAGATGTAGTGGAGTAGGCTAA
*
11507217 AGAT
128 ATAT
* *
11507221 TGTAGGTCTTATCTCC
1 TGTAGATCTTGTCTCC
11507237 TCGAAGCCGC
Statistics
Matches: 381, Mismatches: 25, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
130 122 0.32
131 205 0.54
132 2 0.01
133 51 0.13
134 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (131 bp):
TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGGGCAAATCGAAGACGACGAATCTTGGCTTCCTGA
AGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCCCTAAAGATGTAGTGGAGTAGGCTAAATA
T
Found at i:11508733 original size:20 final size:19
Alignment explanation
Indices: 11508690--11508736 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
11508680 TGTTCGTATA
* *
11508690 TATTT-AAACCTTTTTATT
1 TATTTAAAACCATTTTAGT
11508708 TATTTAAAACCATTTTAGT
1 TATTTAAAACCATTTTAGT
*
11508727 TATTTTAAAC
1 TATTTAAAAC
11508737 TTTGTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.53
Consensus pattern (19 bp):
TATTTAAAACCATTTTAGT
Found at i:11512223 original size:30 final size:30
Alignment explanation
Indices: 11512189--11512251 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
11512179 ACTTATTTTA
11512189 TTGTTAATTTTGTTACTATTTTAAAGACAT
1 TTGTTAATTTTGTTACTATTTTAAAGACAT
* * *
11512219 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTACTATTTTAAAGACAT
11512249 TTG
1 TTG
11512252 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTACTATTTTAAAGACAT
Found at i:11512408 original size:12 final size:12
Alignment explanation
Indices: 11512378--11512410 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
11512368 TATATATTTG
11512378 AAAATT-ATATA
1 AAAATTAATATA
11512389 AAAA-TAATATA
1 AAAATTAATATA
11512400 AAAATTAATAT
1 AAAATTAATAT
11512411 GTGTGGCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:11513156 original size:63 final size:63
Alignment explanation
Indices: 11513055--11513213 Score: 230
Period size: 63 Copynumber: 2.5 Consensus size: 63
11513045 GCACACGCTT
* * * * *
11513055 GTGTGACTCTAATTCTAAAA-AGTTGAGTTACACGGCCTGGACACATGCTCTTGTCCTTGGCCC
1 GTGTGACTCTAATTCTAAAATAG-TGAGTTACACAGCCTGGACACATGCCCATGGCCCTGGCCC
* *
11513118 GTGTGACTCCAATTCCAAAATAGTGAGTTACACAGCCTGGACACATGCCCATGGCCCTGGCCC
1 GTGTGACTCTAATTCTAAAATAGTGAGTTACACAGCCTGGACACATGCCCATGGCCCTGGCCC
*
11513181 GTGTGACTCTAATTCTAAAATAGCGAGTTACAC
1 GTGTGACTCTAATTCTAAAATAGTGAGTTACAC
11513214 GGCCGTGTGG
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
63 83 0.98
64 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (63 bp):
GTGTGACTCTAATTCTAAAATAGTGAGTTACACAGCCTGGACACATGCCCATGGCCCTGGCCC
Found at i:11537261 original size:67 final size:64
Alignment explanation
Indices: 11537152--11537306 Score: 179
Period size: 64 Copynumber: 2.4 Consensus size: 64
11537142 AACACTCAGT
* * * * * *
11537152 ACCACCCATGTGACCTAGCCA-ATTTA-TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCT
1 ACCACCCATGCGACCTAGCTACATATACCCT-GTAGCTCTCTTGTCTACATGGTG---TACACAT
11537215 GGA
62 GGA
* *
11537218 ACCACGCATGCGACCTAGCTACATATACCCTGTAGCTCTCTTGTCTACATGGTGTACACATGGT
1 ACCACCCATGCGACCTAGCTACATATACCCTGTAGCTCTCTTGTCTACATGGTGTACACATGGA
*
11537282 ATCACCCATGCGACCTAGCTACATA
1 ACCACCCATGCGACCTAGCTACATA
11537307 ATAATGTCTT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
64 30 0.39
66 18 0.23
67 27 0.35
68 2 0.03
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (64 bp):
ACCACCCATGCGACCTAGCTACATATACCCTGTAGCTCTCTTGTCTACATGGTGTACACATGGA
Found at i:11541362 original size:16 final size:17
Alignment explanation
Indices: 11541330--11541362 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11541320 ATTGACTAAA
*
11541330 TGTTATATATGTATATT
1 TGTTATATATCTATATT
11541347 TGTTATA-ATCTATATT
1 TGTTATATATCTATATT
11541363 GGATGGCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (17 bp):
TGTTATATATCTATATT
Found at i:11558801 original size:6 final size:6
Alignment explanation
Indices: 11558790--11558852 Score: 63
Period size: 6 Copynumber: 10.5 Consensus size: 6
11558780 TCTTTTTATC
* * * * *
11558790 TTTTTA TTTTTA TTTCTA TTTTTA TTTTTA ATTTTC TCTTTA TTTCTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* *
11558838 TTTCTA TTTTCA TTT
1 TTTTTA TTTTTA TTT
11558853 CAACTTTATT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:11564598 original size:27 final size:27
Alignment explanation
Indices: 11564557--11564610 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
11564547 TGTCATGTGA
* *
11564557 AATTGAATGGAAAATTATTGTTACATG
1 AATTGAATGGAAAATTACTATTACATG
**
11564584 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGAAAATTACTATTACATG
11564611 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGAAAATTACTATTACATG
Found at i:11564969 original size:50 final size:49
Alignment explanation
Indices: 11564844--11565032 Score: 225
Period size: 49 Copynumber: 3.8 Consensus size: 49
11564834 TGAGGTCGCA
* * * *
11564844 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATTTTGTTCAGG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA--TTGGTCACG
* ** **
11564895 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT-GGTCACG
* * *
11564945 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
* *
11564994 TGTGTAGTACTAAGTGCAGGTTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
11565033 GCCTTGTCTA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 43 0.37
50 41 0.35
51 33 0.28
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
Found at i:11567822 original size:2 final size:2
Alignment explanation
Indices: 11567815--11567856 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
11567805 TTATGGATTG
*
11567815 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11567857 GTGTGGTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11568337 original size:12 final size:12
Alignment explanation
Indices: 11568320--11568350 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11568310 TCAGTAGCTT
11568320 CACACGGCCTAG
1 CACACGGCCTAG
*
11568332 CACACGGCCTGG
1 CACACGGCCTAG
11568344 CACACGG
1 CACACGG
11568351 GTCTGTGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.29, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:11572020 original size:33 final size:33
Alignment explanation
Indices: 11571983--11572048 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
11571973 TTAAAAGGAG
*
11571983 TTAGTTATTTTAAAATAAAATAACTAAAATAAA
1 TTAGTTATCTTAAAATAAAATAACTAAAATAAA
***
11572016 TTAGTTATCTTATTTTAAAATAACTAAAATAAA
1 TTAGTTATCTTAAAATAAAATAACTAAAATAAA
11572049 ATAAAACAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (33 bp):
TTAGTTATCTTAAAATAAAATAACTAAAATAAA
Found at i:11576028 original size:17 final size:17
Alignment explanation
Indices: 11576008--11576040 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11575998 TAAGTCCTTA
11576008 TATAAT-TTATGTTATGT
1 TATAATATTA-GTTATGT
11576025 TATAATATTAGTTATG
1 TATAATATTAGTTATG
11576041 GGAATACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (17 bp):
TATAATATTAGTTATGT
Found at i:11576795 original size:17 final size:16
Alignment explanation
Indices: 11576773--11576811 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
11576763 AAAATATGCT
11576773 TTCTCTTTGCTCTCTCA
1 TTCTCTTTGCTCT-TCA
* *
11576790 TTCTCTTTGTTCTTTA
1 TTCTCTTTGCTCTTCA
11576806 TTCTCT
1 TTCTCT
11576812 ATTTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.05, C:0.28, G:0.05, T:0.62
Consensus pattern (16 bp):
TTCTCTTTGCTCTTCA
Found at i:11578752 original size:31 final size:31
Alignment explanation
Indices: 11578711--11578774 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
11578701 CCTTTTCATA
*
11578711 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
11578742 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
11578773 TT
1 TT
11578775 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:11579030 original size:23 final size:24
Alignment explanation
Indices: 11578966--11579107 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
11578956 GCTTTATCAT
*
11578966 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
11578991 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
11579015 ATAACT-GGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
11579037 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
11579061 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
11579085 ATAACTGGGGCATAAGCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTT
11579108 CACTTCCTCC
Statistics
Matches: 108, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
22 6 0.06
23 30 0.28
24 60 0.56
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:11579066 original size:70 final size:72
Alignment explanation
Indices: 11578965--11579107 Score: 202
Period size: 70 Copynumber: 2.0 Consensus size: 72
11578955 TGCTTTATCA
*
11578965 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACT-GGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
11579029 GCCCTTT
66 GCCCTTT
* * **
11579036 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
*
11579099 AGCCTTTT
65 AGCCCTTT
11579107 T
1 T
11579108 CACTTCCTCC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
70 36 0.56
71 28 0.44
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:11579181 original size:20 final size:20
Alignment explanation
Indices: 11579156--11579216 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
11579146 TTATGATTAC
11579156 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
11579176 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
11579196 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
11579216 A
1 A
11579217 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:11580563 original size:27 final size:27
Alignment explanation
Indices: 11580543--11580963 Score: 494
Period size: 27 Copynumber: 15.6 Consensus size: 27
11580533 AGGGTATTTT
*
11580543 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
11580570 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
11580597 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
11580624 GGAAATACTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
11580651 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
11580678 -GATAATTATGTAAATCG-GGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
11580704 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
11580731 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
11580758 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
11580785 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
11580812 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
11580839 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
11580866 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
11580893 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
11580920 AGTAATTCTGTAAA-CTGAGGGTAAAAT
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
11580947 GGTAATTCTATAAATCG
1 AGTAATTCTGTAAATCG
11580964 GGAGTACTTT
Statistics
Matches: 343, Mismatches: 40, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
26 25 0.07
27 314 0.92
28 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:11580980 original size:81 final size:81
Alignment explanation
Indices: 11580544--11580963 Score: 555
Period size: 81 Copynumber: 5.2 Consensus size: 81
11580534 GGGTATTTTA
* * * *
11580544 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
11580609 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* * *
11580625 GAAATACTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGT
11580689 AAATCG-GGGTAAAATG
65 AAATCGAGGGTAAAATG
* * * *
11580705 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGT
*
11580769 AAA-CTGAGGGTAAAACG
65 AAATC-GAGGGTAAAATG
* ** *
11580786 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
* **
11580851 AATCAAGGGTAAAACA
66 AATCGAGGGTAAAATG
* *
11580867 ATAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGT
11580931 AAA-CTGAGGGTAAAATG
65 AAATC-GAGGGTAAAATG
*
11580948 GTAATTCTATAAATCG
1 GTAATTCTGTAAATCG
11580964 GGAGTACTTT
Statistics
Matches: 295, Mismatches: 34, Indels: 20
0.85 0.10 0.06
Matches are distributed among these distances:
79 2 0.01
80 70 0.24
81 220 0.75
82 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
AATCGAGGGTAAAATG
Found at i:11583837 original size:31 final size:31
Alignment explanation
Indices: 11583796--11583859 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
11583786 CCTTTTCATA
*
11583796 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
11583827 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
11583858 TT
1 TT
11583860 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:11584102 original size:24 final size:24
Alignment explanation
Indices: 11584051--11584193 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
11584041 GCTTTATCAT
*
11584051 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
11584076 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
11584100 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
11584123 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
11584147 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
11584171 ATAACTGGGGCATAAGCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTT
11584194 CACTTCCTCC
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
23 23 0.21
24 75 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:11584130 original size:47 final size:48
Alignment explanation
Indices: 11584051--11584188 Score: 199
Period size: 47 Copynumber: 2.9 Consensus size: 48
11584041 GCTTTATCAT
* *
11584051 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
11584100 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
11584147 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
11584189 TTTTTCACTT
Statistics
Matches: 83, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
47 44 0.53
48 27 0.33
49 12 0.14
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:11584151 original size:71 final size:72
Alignment explanation
Indices: 11584050--11584193 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
11584040 TGCTTTATCA
*
11584050 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
11584115 GCCCTTT
66 GCCCTTT
* * **
11584122 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
*
11584185 AGCCTTTT
65 AGCCCTTT
11584193 T
1 T
11584194 CACTTCCTCC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 52 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:11584267 original size:20 final size:20
Alignment explanation
Indices: 11584242--11584302 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
11584232 TTATGATTAC
11584242 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
11584262 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
11584282 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
11584302 A
1 A
11584303 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:11584377 original size:25 final size:25
Alignment explanation
Indices: 11584345--11584392 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11584335 ATACATAAAC
* * *
11584345 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
11584370 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
11584393 CATTATAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:11585647 original size:27 final size:27
Alignment explanation
Indices: 11585627--11586047 Score: 501
Period size: 27 Copynumber: 15.6 Consensus size: 27
11585617 AGGGTATTTT
*
11585627 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
11585654 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
11585681 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
11585708 GGAAATACTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
11585735 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
11585762 -GATAATTATGTAAATCG-GGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
11585788 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
11585815 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
11585842 AGTAATTCTGTAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
11585869 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
11585896 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
11585923 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
11585950 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
11585977 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
11586004 AGTAATTCTGTAAA-CTGAGGGTAAAAT
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
11586031 GGTAATTCTATAAATCG
1 AGTAATTCTGTAAATCG
11586048 GGAGTACTTT
Statistics
Matches: 343, Mismatches: 42, Indels: 18
0.85 0.10 0.04
Matches are distributed among these distances:
26 24 0.07
27 316 0.92
28 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:11586064 original size:81 final size:81
Alignment explanation
Indices: 11585628--11586047 Score: 562
Period size: 81 Copynumber: 5.2 Consensus size: 81
11585618 GGGTATTTTA
* * * *
11585628 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
11585693 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* * *
11585709 GAAATACTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGT
11585773 AAATCG-GGGTAAAATG
65 AAATCGAGGGTAAAATG
* * * *
11585789 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGT
* *
11585853 AAATTGAGGGTAAAACG
65 AAATCGAGGGTAAAATG
* ** *
11585870 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
* **
11585935 AATCAAGGGTAAAACA
66 AATCGAGGGTAAAATG
* *
11585951 ATAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGT
11586015 AAA-CTGAGGGTAAAATG
65 AAATC-GAGGGTAAAATG
*
11586032 GTAATTCTATAAATCG
1 GTAATTCTGTAAATCG
11586048 GGAGTACTTT
Statistics
Matches: 295, Mismatches: 36, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
79 1 0.00
80 71 0.24
81 221 0.75
82 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
AATCGAGGGTAAAATG
Found at i:11589452 original size:27 final size:26
Alignment explanation
Indices: 11589414--11589529 Score: 151
Period size: 27 Copynumber: 4.3 Consensus size: 26
11589404 CAGCATGGCT
* *
11589414 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
11589440 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
11589468 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * *
11589495 ACCAGATCAGATATTTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
11589522 ACCAGAAC
1 ACCAGAAC
11589530 GCTTCCTCCA
Statistics
Matches: 81, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 6 0.07
27 58 0.72
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:11589473 original size:54 final size:54
Alignment explanation
Indices: 11589414--11589529 Score: 171
Period size: 54 Copynumber: 2.1 Consensus size: 54
11589404 CAGCATGGCT
*
11589414 ACCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCC
* * * *
11589468 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
11589522 ACCAGAAC
1 ACCAGAAC
11589530 GCTTCCTCCA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 38 0.68
55 18 0.32
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
ACCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
Found at i:11589660 original size:26 final size:27
Alignment explanation
Indices: 11589631--11589705 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 27
11589621 AAAATTAACC
* *
11589631 CTAGGGGTATAACGGTAATTTTGCAT-
1 CTAGGGGTATAACAGTAATTTTCCATA
11589657 CTAGGGGTATAACAGTAATTTTCCATA
1 CTAGGGGTATAACAGTAATTTTCCATA
* *
11589684 CATAGGGGTATTATAGTAATTT
1 C-TAGGGGTATAACAGTAATTT
11589706 AGCTACTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 24 0.56
27 1 0.02
28 18 0.42
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.36
Consensus pattern (27 bp):
CTAGGGGTATAACAGTAATTTTCCATA
Found at i:11591183 original size:26 final size:26
Alignment explanation
Indices: 11591145--11591228 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
11591135 CATGAAATTC
* *
11591145 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
11591171 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
11591197 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
11591223 TTATCA
1 TTATCA
11591229 ATTTGTACCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:11594432 original size:51 final size:51
Alignment explanation
Indices: 11594369--11594488 Score: 177
Period size: 51 Copynumber: 2.4 Consensus size: 51
11594359 CTGAAACTTA
* *
11594369 CTTCATACTTCATCCGGAATTATTACATTGTTGCTCTAACTTCAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACATTGTTGCTCTAACTTCAACAAGAG
* * * *
11594420 CTTCATATTTCATCCAGAATAATTACTTTGTTGCTCTAGCTTTAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACATTGTTGCTCTAACTTCAACAAGAG
*
11594471 CTTCATATTTTATCCGGA
1 CTTCATATTTCATCCGGA
11594489 TAACTTAGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (51 bp):
CTTCATATTTCATCCGGAATAATTACATTGTTGCTCTAACTTCAACAAGAG
Found at i:11595663 original size:16 final size:16
Alignment explanation
Indices: 11595644--11595676 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11595634 AATTTTTCCC
11595644 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCTTTCTT
11595660 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCTTTCTT
11595676 T
1 T
11595677 CCCCTGCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCCTTCTTTCTT
Found at i:11595738 original size:11 final size:11
Alignment explanation
Indices: 11595707--11595740 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
11595697 TCATCCTTTC
*
11595707 TTTCTTTTTCT
1 TTTCTTTTTTT
*
11595718 ATTCTTTTTTT
1 TTTCTTTTTTT
11595729 TTTCTTTTTTT
1 TTTCTTTTTTT
11595740 T
1 T
11595741 ATTCCCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:11595750 original size:23 final size:22
Alignment explanation
Indices: 11595707--11595750 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
11595697 TCATCCTTTC
**
11595707 TTTCTTTTTCTATTCTTTTTTT
1 TTTCTTTTTCTATTCCCTTTTT
*
11595729 TTTCTTTTTTTTATTCCCTTTT
1 TTTC-TTTTTCTATTCCCTTTT
11595751 ACTTTATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTCTTTTTCTATTCCCTTTTT
Found at i:11596603 original size:25 final size:26
Alignment explanation
Indices: 11596551--11596618 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
11596541 AGCTCTTTCA
* * *
11596551 AGCCATATAACAGGAAG-TTTATGTG
1 AGCCATATAACGGGAAGCTTTAGGAG
11596576 AGCCATATAACGGGAAGCTTT-GGAG
1 AGCCATATAACGGGAAGCTTTAGGAG
*
11596601 AGCTAT-TAACGGGAAGCT
1 AGCCATATAACGGGAAGCT
11596619 CATATGAGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 12 0.32
25 23 0.61
26 3 0.08
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.24
Consensus pattern (26 bp):
AGCCATATAACGGGAAGCTTTAGGAG
Found at i:11596698 original size:25 final size:24
Alignment explanation
Indices: 11596610--11596700 Score: 94
Period size: 24 Copynumber: 3.8 Consensus size: 24
11596600 GAGCTATTAA
*
11596610 CGGGAAGCTCATATGAGCCAATAT
1 CGGGAAGCTCATAAGAGCCAATAT
* *
11596634 CGGGAAGTTCA-AGCGAGCCAATAT
1 CGGGAAGCTCATA-AGAGCCAATAT
* **
11596658 TGGGAAGCTCCGAAGAGCCATATAT
1 CGGGAAGCTCATAAGAGCCA-ATAT
*
11596683 CGGGACGCTCATAAGAGC
1 CGGGAAGCTCATAAGAGC
11596701 TGCGGTGTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
23 1 0.02
24 34 0.63
25 19 0.35
ACGTcount: A:0.32, C:0.22, G:0.29, T:0.18
Consensus pattern (24 bp):
CGGGAAGCTCATAAGAGCCAATAT
Found at i:11602226 original size:43 final size:42
Alignment explanation
Indices: 11602089--11602227 Score: 108
Period size: 43 Copynumber: 3.2 Consensus size: 42
11602079 CACGTCTGAA
* * * * *
11602089 ACGTTGGCATCGACT-TATGATTTACGTGTAAGATTACGTTTGGG
1 ACGTTGGCATCGA-TATTTGA-TTACATGTAAGA-CACCTTTTGG
* *
11602133 ACGTTGGCATC-ATATTTGATTTCATGTAAGAC-CCTGTCTGG
1 ACGTTGGCATCGATATTTGATTACATGTAAGACACCT-TTTGG
11602174 --GTTAGTGGCATCGATATTTGATTACATGTAAGACCACCTTTTGG
1 ACG-T--TGGCATCGATATTTGATTACATGTAAGA-CACCTTTTGG
11602218 ACGTTGGCAT
1 ACGTTGGCAT
11602228 TGTATGAGTT
Statistics
Matches: 76, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
39 1 0.01
40 3 0.04
41 3 0.04
42 18 0.24
43 30 0.39
44 16 0.21
45 4 0.05
46 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (42 bp):
ACGTTGGCATCGATATTTGATTACATGTAAGACACCTTTTGG
Found at i:11602839 original size:23 final size:23
Alignment explanation
Indices: 11602787--11602839 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
11602777 TTTAGCCATG
11602787 TGATATGGCTTAATTATGGTTGA
1 TGATATGGCTTAATTATGGTTGA
*** *
11602810 ACTTATGGCTTGATTATGGTAT-A
1 TGATATGGCTTAATTATGGT-TGA
11602833 TGATATG
1 TGATATG
11602840 TGATGCAAAT
Statistics
Matches: 22, Mismatches: 7, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.26, C:0.06, G:0.25, T:0.43
Consensus pattern (23 bp):
TGATATGGCTTAATTATGGTTGA
Found at i:11603488 original size:42 final size:42
Alignment explanation
Indices: 11603419--11603518 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
11603409 CTCTGTTTTG
* * * *
11603419 ACACAGCCTG-ACACACAGGCGTGTCTAATGCCGTGTGAGGC
1 ACACAGCCTGTTCACACAGGAGTGTCTAACGCCGTGTGAGAC
*
11603460 ACACAGCCTGTTCACACAGGAGTTTCTAACGCCGTGTGAGAC
1 ACACAGCCTGTTCACACAGGAGTGTCTAACGCCGTGTGAGAC
**
11603502 ACATGGCCTGTTCACAC
1 ACACAGCCTGTTCACAC
11603519 GGGCGTGTGA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 10 0.20
42 41 0.80
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (42 bp):
ACACAGCCTGTTCACACAGGAGTGTCTAACGCCGTGTGAGAC
Found at i:11606630 original size:59 final size:59
Alignment explanation
Indices: 11606563--11606681 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
11606553 TTATGCCTAT
11606563 AAATAAAGACTTTAGAGAAGTTTTATAAATATTTTAATTGATCAATAAAATACATAATG
1 AAATAAAGACTTTAGAGAAGTTTTATAAATATTTTAATTGATCAATAAAATACATAATG
11606622 AAATAAAGACTTTAGAGAAGTTTTATAAATATTTTAATTGATCAATAAAATACATAATG
1 AAATAAAGACTTTAGAGAAGTTTTATAAATATTTTAATTGATCAATAAAATACATAATG
11606681 A
1 A
11606682 TATATGTAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (59 bp):
AAATAAAGACTTTAGAGAAGTTTTATAAATATTTTAATTGATCAATAAAATACATAATG
Found at i:11617222 original size:38 final size:38
Alignment explanation
Indices: 11617171--11617246 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
11617161 CACAGTGAGA
11617171 TAGTCCACTTTTAATCCTTCATGCAGATGATGACGGAT
1 TAGTCCACTTTTAATCCTTCATGCAGATGATGACGGAT
11617209 TAGTCCACTTTTAATCCTTCATGCAGATGATGACGGAT
1 TAGTCCACTTTTAATCCTTCATGCAGATGATGACGGAT
11617247 GAAAATCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (38 bp):
TAGTCCACTTTTAATCCTTCATGCAGATGATGACGGAT
Found at i:11623164 original size:47 final size:47
Alignment explanation
Indices: 11623111--11623202 Score: 184
Period size: 47 Copynumber: 2.0 Consensus size: 47
11623101 ATCTCCAAAA
11623111 TGTAGACCTTCGCTAGCTTCTGCAGTGAATAGTCTGCCCGAACCGAT
1 TGTAGACCTTCGCTAGCTTCTGCAGTGAATAGTCTGCCCGAACCGAT
11623158 TGTAGACCTTCGCTAGCTTCTGCAGTGAATAGTCTGCCCGAACCG
1 TGTAGACCTTCGCTAGCTTCTGCAGTGAATAGTCTGCCCGAACCG
11623203 GGACAAAGTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (47 bp):
TGTAGACCTTCGCTAGCTTCTGCAGTGAATAGTCTGCCCGAACCGAT
Found at i:11627836 original size:31 final size:31
Alignment explanation
Indices: 11627798--11627892 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
11627788 CCTTTTCATA
* *
11627798 TTTCATATTTCATAATACTGGGCCGAAGTCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
11627829 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
11627860 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
11627891 TT
1 TT
11627893 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:11628166 original size:23 final size:23
Alignment explanation
Indices: 11628083--11628271 Score: 256
Period size: 24 Copynumber: 8.0 Consensus size: 23
11628073 TGCTTTATCA
*
11628083 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
*
11628107 TAATAACTGGGGCAAAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
*
11628131 CAATAACTGGGGCATAAGCCCTTT
1 -TATAACTGGGGCATAAGCCCTTT
*
11628155 TATAACTAGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
11628178 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
11628201 TGATAACTGGGGCATAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
11628225 TGATAACTGGGGCATAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
*
11628249 AATAAC-GGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
11628271 T
1 T
11628272 GCACTTCCTC
Statistics
Matches: 150, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
22 16 0.11
23 47 0.31
24 75 0.50
25 12 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:11628271 original size:70 final size:70
Alignment explanation
Indices: 11628105--11628272 Score: 284
Period size: 70 Copynumber: 2.4 Consensus size: 70
11628095 CCTAGCCTCT
* **
11628105 TTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTTATAACTAGGGCATA
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTATAACTAGGGCATA
11628170 AGCCC
66 AGCCC
*
11628175 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAT
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT-ATAACTAGGGCAT
11628240 AAGCCC
65 AAGCCC
11628246 TTTAATAAC-GGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTG
11628273 CACTTCCTCC
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
70 66 0.71
71 27 0.29
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (70 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTATAACTAGGGCATA
AGCCC
Found at i:11628343 original size:9 final size:9
Alignment explanation
Indices: 11628329--11628385 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
11628319 ATCTCATGTG
11628329 CATATCATA
1 CATATCATA
*
11628338 CATATCATGTG
1 CATATCA--TA
11628349 CATATCATA
1 CATATCATA
* *
11628358 CATGTCATGTG
1 CATATCA--TA
11628369 CATATCATA
1 CATATCATA
11628378 CATATCAT
1 CATATCAT
11628386 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:11628345 original size:20 final size:20
Alignment explanation
Indices: 11628317--11628387 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
11628307 GCATTTATGA
*
11628317 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
11628337 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
11628357 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
11628377 ACATATCATGT
1 ACATATCATGT
11628388 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:11628352 original size:11 final size:11
Alignment explanation
Indices: 11628322--11628376 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
11628312 TATGAACATC
11628322 TCATGTGCATA
1 TCATGTGCATA
*
11628333 TCA--TACATA
1 TCATGTGCATA
11628342 TCATGTGCATA
1 TCATGTGCATA
* *
11628353 TCA--TACATG
1 TCATGTGCATA
11628362 TCATGTGCATA
1 TCATGTGCATA
11628373 TCAT
1 TCAT
11628377 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:11629731 original size:27 final size:27
Alignment explanation
Indices: 11629711--11630109 Score: 463
Period size: 27 Copynumber: 14.9 Consensus size: 27
11629701 AGGGTATTTT
*
11629711 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
11629738 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
11629765 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
11629792 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
11629819 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
11629846 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
11629873 -GATAATTATGTAAATCTG-GGGTAAAAT
1 AG-TAATTCTGTAAATC-GAGGGTAAAAC
* * *
11629900 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
11629927 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
11629954 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
11629981 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
11630008 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* * **
11630035 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
11630062 GGTAATTCTGTAAATCG-GGGTAAAA-
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
11630087 TGATAATTCTGTAAATCG-GGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
11630110 CTTTGGTAAT
Statistics
Matches: 330, Mismatches: 31, Indels: 23
0.86 0.08 0.06
Matches are distributed among these distances:
25 1 0.00
26 31 0.09
27 293 0.89
28 5 0.02
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:11630145 original size:27 final size:27
Alignment explanation
Indices: 11630115--11630204 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
11630105 GGGTACTTTG
* *
11630115 GTAATTTTATAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
11630142 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * * *
11630169 GTATTTTTACAAA-CTAAGGGTATCTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
11630196 GTAATTTTA
1 GTAATTTTA
11630205 GTAAACTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:11632897 original size:38 final size:35
Alignment explanation
Indices: 11632837--11632954 Score: 126
Period size: 31 Copynumber: 3.5 Consensus size: 35
11632827 TCAATCATGC
*
11632837 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
*
11632876 ACTGGGCCGAAGTCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
11632907 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
11632938 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
11632955 ACTGTAAACG
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
31 48 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 13 0.17
39 11 0.14
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:11632898 original size:31 final size:31
Alignment explanation
Indices: 11632860--11632954 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
11632850 CCTTTTCATA
* *
11632860 TTTCATATTTCATAATACTGGGCCGAAGTCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
11632891 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
11632922 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
11632953 TT
1 TT
11632955 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:11633197 original size:24 final size:23
Alignment explanation
Indices: 11633167--11633333 Score: 253
Period size: 23 Copynumber: 7.1 Consensus size: 23
11633157 CCTAGCCTCT
*
11633167 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
11633190 TTTCAATAACTAGGGCATAAGCCC
1 TTT-AATAACTGGGGCATAAGCCC
* *
11633214 TTTTATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
11633237 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
11633260 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
11633284 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
11633308 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
11633331 TTT
1 TTT
11633334 TGCACTTCCT
Statistics
Matches: 135, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 68 0.50
24 67 0.50
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:11633223 original size:47 final size:47
Alignment explanation
Indices: 11633146--11633333 Score: 265
Period size: 47 Copynumber: 4.0 Consensus size: 47
11633136 GCTTTATCAT
* *
11633146 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTT-A
* *
11633195 ATAACTAGGGCATAAGCCCTTTT-ATAACTAGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
* *
11633241 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC-TTTA
11633289 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
11633334 TGCACTTCCT
Statistics
Matches: 128, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
46 26 0.20
47 60 0.47
48 31 0.24
49 11 0.09
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:11633225 original size:23 final size:23
Alignment explanation
Indices: 11633145--11633334 Score: 256
Period size: 24 Copynumber: 8.0 Consensus size: 23
11633135 TGCTTTATCA
*
11633145 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
*
11633169 TAATAACTGGGGCAAAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
* *
11633193 CAATAACTAGGGCATAAGCCCTTT
1 -TATAACTGGGGCATAAGCCCTTT
*
11633217 TATAACTAGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
11633240 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
11633263 TGATAACTGGGGCATAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
11633287 TGATAACTGGGGCATAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
*
11633311 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
11633334 T
1 T
11633335 GCACTTCCTC
Statistics
Matches: 151, Mismatches: 11, Indels: 9
0.88 0.06 0.05
Matches are distributed among these distances:
23 65 0.43
24 74 0.49
25 12 0.08
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:11633410 original size:20 final size:20
Alignment explanation
Indices: 11633380--11633450 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
11633370 GCATTTATGA
*
11633380 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
11633400 ACATATTATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
11633420 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
11633440 ACATATCATGT
1 ACATATCATGT
11633451 TTATCAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:11633518 original size:25 final size:26
Alignment explanation
Indices: 11633485--11633534 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
11633475 TCATACATAA
* * *
11633485 ACCCTAGGGGTATAATGGTCATTTTT
1 ACCCTAGGGGCAAAACGGTCATTTTT
11633511 ACCC-AGGGGCAAAACGGTCATTTT
1 ACCCTAGGGGCAAAACGGTCATTTT
11633535 CATATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (26 bp):
ACCCTAGGGGCAAAACGGTCATTTTT
Found at i:11634795 original size:27 final size:27
Alignment explanation
Indices: 11634775--11635175 Score: 463
Period size: 27 Copynumber: 14.9 Consensus size: 27
11634765 AGGGTATTTT
*
11634775 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
11634802 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
11634829 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
11634856 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
11634883 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
11634910 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
11634937 -GATAATTATGTAAATCTG-GGGTAAAAT
1 AG-TAATTCTGTAAATC-GAGGGTAAAAC
* * *
11634964 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
11634991 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
11635018 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
11635045 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
11635072 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* * **
11635099 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
11635126 GGTAATTCTGTAAATCGGGGGTAAAA-
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
11635152 TGATAATTCTGTAAATCGGGGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
11635176 CTTTGGTAAT
Statistics
Matches: 331, Mismatches: 32, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.01
27 322 0.97
28 5 0.02
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:11635224 original size:27 final size:27
Alignment explanation
Indices: 11635181--11635270 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
11635171 GGGTACTTTG
* *
11635181 GTAATTTTATAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
11635208 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * * *
11635235 GTATTTTTACAAA-CTAAGGGTATCTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
11635262 GTAATTTTA
1 GTAATTTTA
11635271 GTAAACTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:11640632 original size:2 final size:2
Alignment explanation
Indices: 11640625--11640654 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11640615 TATTTTACAA
11640625 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11640655 TTAAATATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11641000 original size:2 final size:2
Alignment explanation
Indices: 11640993--11641022 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11640983 TTATCATGGG
11640993 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11641023 ATGTTGATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11642703 original size:2 final size:2
Alignment explanation
Indices: 11642657--11642693 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11642647 CCCTTTCTCT
11642657 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11642694 CCTTTATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11643258 original size:25 final size:27
Alignment explanation
Indices: 11643214--11643264 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
11643204 TATATTAATT
*
11643214 TTTTTTTGTTTTTAAAT-AAAATATTA
1 TTTTTTTATTTTTAAATAAAAATATTA
*
11643240 TTTTTTTATTTTT-ATTAAAAATATT
1 TTTTTTTATTTTTAAATAAAAATATT
11643265 TAAATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTTTTATTTTTAAATAAAAATATTA
Found at i:11643638 original size:21 final size:21
Alignment explanation
Indices: 11643599--11643638 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
11643589 CACCGGAAGA
11643599 GAGAAAAAAAAAGAGAGAAAG
1 GAGAAAAAAAAAGAGAGAAAG
11643620 GAGAAGAAAAAAAGA-AGAA
1 GAGAA-AAAAAAAGAGAGAA
11643639 GAAAAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (21 bp):
GAGAAAAAAAAAGAGAGAAAG
Found at i:11643641 original size:14 final size:14
Alignment explanation
Indices: 11643616--11643660 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
11643606 AAAAAGAGAG
*
11643616 AAAGGAGAAGAAAA
1 AAAGAAGAAGAAAA
11643630 AAAGAAGAAG-AAA
1 AAAGAAGAAGAAAA
*
11643643 AAAGAAAAAAGAAAA
1 AAAG-AAGAAGAAAA
11643658 AAA
1 AAA
11643661 ATGTAATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 7 0.26
14 14 0.52
15 6 0.22
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAGAAGAAGAAAA
Found at i:11643647 original size:21 final size:23
Alignment explanation
Indices: 11643595--11643652 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
11643585 CACACACCGG
11643595 AAGAG-AGAAAAAAAAAGAGAGA
1 AAGAGAAGAAAAAAAAAGAGAGA
11643617 AAGGAGAAGAAAAAAAGAAGA-AGA
1 AA-GAGAAGAAAAAAA-AAGAGAGA
11643641 AA-A-AAGAAAAAA
1 AAGAGAAGAAAAAA
11643653 GAAAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
21 9 0.27
22 3 0.09
23 3 0.09
24 14 0.42
25 4 0.12
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (23 bp):
AAGAGAAGAAAAAAAAAGAGAGA
Found at i:11643649 original size:7 final size:7
Alignment explanation
Indices: 11643627--11643659 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
11643617 AAGGAGAAGA
11643627 AAAAAAG
1 AAAAAAG
*
11643634 -AAGAAG
1 AAAAAAG
11643640 AAAAAAG
1 AAAAAAG
11643647 AAAAAAG
1 AAAAAAG
11643654 AAAAAA
1 AAAAAA
11643660 AATGTAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:11643868 original size:33 final size:32
Alignment explanation
Indices: 11643825--11643932 Score: 95
Period size: 33 Copynumber: 3.4 Consensus size: 32
11643815 GTTTTTTATA
*
11643825 ATTATTTTAAAATTAATTTGTTAGTAATTTAGG
1 ATTATGTTAAAATTAATTT-TTAGTAATTTAGG
11643858 ATTATGTTAAAA--AATTTTGT-GT--TTGTA--
1 ATTATGTTAAAATTAATTTT-TAGTAATT-TAGG
*
11643885 ATTATTTTAAAATTAATTTATTAGTAATTTAGG
1 ATTATGTTAAAATTAATTT-TTAGTAATTTAGG
*
11643918 ATTAAGTTATAAATT
1 ATTATGTTA-AAATT
11643933 GTTGTGTTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 21
0.71 0.05 0.25
Matches are distributed among these distances:
27 11 0.18
28 2 0.03
29 8 0.13
30 6 0.10
31 8 0.13
32 2 0.03
33 18 0.30
34 5 0.08
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (32 bp):
ATTATGTTAAAATTAATTTTTAGTAATTTAGG
Found at i:11643909 original size:60 final size:60
Alignment explanation
Indices: 11643823--11643941 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 60
11643813 TTGTTTTTTA
* *
11643823 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTAAAAAATT-TTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTT-AAAAATTGTTGTGTTTG
*
11643883 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTAAAAATTGTTGTGTTT
11643942 AGTTTAGTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 6 0.11
60 49 0.89
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTAAAAATTGTTGTGTTTG
Found at i:11650049 original size:27 final size:27
Alignment explanation
Indices: 11650011--11650078 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
11650001 TGTGGGCCCC
*
11650011 ACCATTTGCGCCTCTG-GGATAGGTACA
1 ACCATTTGCGCCTCTGAGG-TAGGCACA
11650038 ACCATTTGCGCCTCTGAGGTAGGCACA
1 ACCATTTGCGCCTCTGAGGTAGGCACA
* *
11650065 ATCATTTGCACCTC
1 ACCATTTGCGCCTC
11650079 AGAGAAAGGC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 35 0.95
28 2 0.05
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (27 bp):
ACCATTTGCGCCTCTGAGGTAGGCACA
Found at i:11650088 original size:27 final size:27
Alignment explanation
Indices: 11650011--11650088 Score: 66
Period size: 27 Copynumber: 2.9 Consensus size: 27
11650001 TGTGGGCCCC
* * * * *
11650011 ACCATTTGCGCCTCTGGGATAGGTACA
1 ACCATTTGCACCTCAGAGAAAGGCACA
* * **
11650038 ACCATTTGCGCCTCTGAGGTAGGCACA
1 ACCATTTGCACCTCAGAGAAAGGCACA
*
11650065 ATCATTTGCACCTCAGAGAAAGGC
1 ACCATTTGCACCTCAGAGAAAGGC
11650089 TCGATTAGTC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (27 bp):
ACCATTTGCACCTCAGAGAAAGGCACA
Found at i:11651424 original size:17 final size:17
Alignment explanation
Indices: 11651378--11651424 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
11651368 ATTATCCTTA
* *
11651378 AAAATTA-AAAAACATT
1 AAAATTATAAAAATATG
**
11651394 AAAATTATTTAAATATG
1 AAAATTATAAAAATATG
11651411 AAAATTATAAAAAT
1 AAAATTATAAAAAT
11651425 TATTTTTTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAATTATAAAAATATG
Found at i:11655661 original size:84 final size:84
Alignment explanation
Indices: 11655443--11655653 Score: 269
Period size: 84 Copynumber: 2.5 Consensus size: 84
11655433 CCTCGGCCTC
* * * * * * * * * *
11655443 TCCAGCTCCGGAAACTTCTCCCTCGCCAGCCGAAACTCCGGAATTGGCTCCGGAAACTTCGCCTT
1 TCCAGCCCCCGAAACTTCTCCCTTGCCAACAGAAACCCCGGAAATAGCTCCAGAAACCTCGCCTT
*
11655508 CTTTCCCACCATCCGTGTA
66 CTCTCCCACCATCCGTGTA
* * **
11655527 TCCAGCTCCCGAAACTTCTCCCATGCCAATGGAAACCCCGGAAATAGCTCCAGAAACCTCGCCTT
1 TCCAGCCCCCGAAACTTCTCCCTTGCCAACAGAAACCCCGGAAATAGCTCCAGAAACCTCGCCTT
11655592 CTCTCCCACCATCCGTGTA
66 CTCTCCCACCATCCGTGTA
**
11655611 TCTGGCCCCCGAAACTTCTCCCTTGCCAACAGAAACCCCGGAA
1 TCCAGCCCCCGAAACTTCTCCCTTGCCAACAGAAACCCCGGAA
11655654 GCAGCTCCTG
Statistics
Matches: 109, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 109 1.00
ACGTcount: A:0.23, C:0.40, G:0.16, T:0.21
Consensus pattern (84 bp):
TCCAGCCCCCGAAACTTCTCCCTTGCCAACAGAAACCCCGGAAATAGCTCCAGAAACCTCGCCTT
CTCTCCCACCATCCGTGTA
Found at i:11668179 original size:19 final size:20
Alignment explanation
Indices: 11668146--11668185 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
11668136 AAAAAATTTA
* *
11668146 ATTTTTTAATAAATATATAT
1 ATTTTTAAATAAATAGATAT
11668166 ATTTTTAAAT-AATAGATAT
1 ATTTTTAAATAAATAGATAT
11668185 A
1 A
11668186 ATTAGGCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
ATTTTTAAATAAATAGATAT
Found at i:11680490 original size:36 final size:36
Alignment explanation
Indices: 11680443--11680515 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
11680433 CCTTTTTGTA
* *
11680443 TGCTGCATAACGATTTACAGTGGGGAGATTAGTAAG
1 TGCTGCATAACGATTTACAGTAGGGAGATCAGTAAG
*
11680479 TGCTGCATAACGATTTACATTAGGGAGATCAGTAAG
1 TGCTGCATAACGATTTACAGTAGGGAGATCAGTAAG
11680515 T
1 T
11680516 TGAACTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (36 bp):
TGCTGCATAACGATTTACAGTAGGGAGATCAGTAAG
Found at i:11690195 original size:40 final size:40
Alignment explanation
Indices: 11690150--11690230 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
11690140 TCAATTATTC
11690150 TTTAATTGATAATTCAACTTTCACTCTTTATGCAATCTAG
1 TTTAATTGATAATTCAACTTTCACTCTTTATGCAATCTAG
* *
11690190 TTTAATTTATAATTCAACTTTCACTCTTTATGCAATTTAG
1 TTTAATTGATAATTCAACTTTCACTCTTTATGCAATCTAG
11690230 T
1 T
11690231 CCTAATTATC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.16, G:0.06, T:0.48
Consensus pattern (40 bp):
TTTAATTGATAATTCAACTTTCACTCTTTATGCAATCTAG
Found at i:11693946 original size:2 final size:2
Alignment explanation
Indices: 11693939--11693966 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11693929 AATCATAATA
11693939 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11693967 CTCATACACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11697015 original size:22 final size:22
Alignment explanation
Indices: 11696985--11697028 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11696975 ATTTAGTCTA
11696985 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
11697007 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
11697029 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:11697080 original size:15 final size:16
Alignment explanation
Indices: 11697053--11697083 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
11697043 AATTCATTTT
11697053 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
11697069 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
11697084 TTATATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:11706197 original size:22 final size:26
Alignment explanation
Indices: 11706171--11706224 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
11706161 TTATAAATTC
11706171 AATTTAAAAG-ATA-T-AAT-ACAAT
1 AATTTAAAAGCATATTAAATAACAAT
*
11706193 AATTT-CAAGCATATTAAATAACAAT
1 AATTTAAAAGCATATTAAATAACAAT
11706218 AATTTAA
1 AATTTAA
11706225 TCATAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
23 1 0.04
24 3 0.12
25 10 0.40
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (26 bp):
AATTTAAAAGCATATTAAATAACAAT
Found at i:11706235 original size:24 final size:25
Alignment explanation
Indices: 11706188--11706235 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
11706178 AAGATATAAT
**
11706188 ACAATAATTTCAAGCATATTAAATA
1 ACAATAATTTCAAGCATAAAAAATA
*
11706213 ACAATAATTT-AATCATAAAAAAT
1 ACAATAATTTCAAGCATAAAAAAT
11706236 TGTAATCATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.31
Consensus pattern (25 bp):
ACAATAATTTCAAGCATAAAAAATA
Found at i:11707147 original size:2 final size:2
Alignment explanation
Indices: 11707140--11707171 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11707130 AGATTGCATA
11707140 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11707172 CCATATTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11708768 original size:21 final size:21
Alignment explanation
Indices: 11708721--11708782 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
11708711 TTTGGGTGGA
* * *
11708721 TCAGCTCTTACGAGTTTCTAT
1 TCAGCTCTTTCGAGCTTCTGT
*
11708742 TTAGCTCTTTCGAGCTTCTGT
1 TCAGCTCTTTCGAGCTTCTGT
11708763 TCAG--CTTTCGAGCTTCTGT
1 TCAGCTCTTTCGAGCTTCTGT
11708782 T
1 T
11708783 GGTGTATTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
19 16 0.44
21 20 0.56
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (21 bp):
TCAGCTCTTTCGAGCTTCTGT
Found at i:11713591 original size:38 final size:39
Alignment explanation
Indices: 11713472--11713608 Score: 170
Period size: 38 Copynumber: 3.5 Consensus size: 39
11713462 GGATATAACG
* *
11713472 ACTCGCTCAAATGCCTTCGGGAC-AAACCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAA-CCCGGTT-TAGTA
* *
11713512 ACTCGCACGAATGCCTTCGGGACTTAACCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTAGTA
* *
11713551 ACTCGCACAAATGCCTTCGGG-CTTAACCCGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTAGTA
* *
11713589 ACTCGCACGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
11713609 ATCTTAGTCC
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
38 32 0.37
39 25 0.29
40 27 0.31
41 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTAGTA
Found at i:11721586 original size:40 final size:40
Alignment explanation
Indices: 11721540--11721669 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
11721530 ACGACTCTCA
*
11721540 AATGCCTTCGGGAC-AAACCCCGGTTATAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCCGGTT-TAGTAACTCGCACG
* *
11721580 AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCCGGTTTAGTAACTCGCACG
*
11721620 AATGCCTTCGGG-CTTAA-CCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCCGG-TTTAGTAACTCGCACG
*
11721659 AACGCCTTCGG
1 AATGCCTTCGG
11721670 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
38 4 0.05
39 29 0.36
40 39 0.48
41 9 0.11
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCCGGTTTAGTAACTCGCACG
Found at i:11729628 original size:40 final size:40
Alignment explanation
Indices: 11729583--11729712 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
11729573 CGGAATACAA
11729583 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
11729623 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
11729663 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
11729703 CCGGATATAA
1 CCGGATATAA
11729713 TTTCCAGCAA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:11734473 original size:17 final size:18
Alignment explanation
Indices: 11734451--11734486 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11734441 GATATATTAT
11734451 TAAACTTG-GTTGTTAAA
1 TAAACTTGTGTTGTTAAA
*
11734468 TAAACTTGTTTTGTTAAA
1 TAAACTTGTGTTGTTAAA
11734486 T
1 T
11734487 GATTTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (18 bp):
TAAACTTGTGTTGTTAAA
Found at i:11737739 original size:239 final size:240
Alignment explanation
Indices: 11737343--11737823 Score: 892
Period size: 239 Copynumber: 2.0 Consensus size: 240
11737333 GAAATATAAA
11737343 ATTTAGGGCGTTACAGATTTTATGTCTCATTTTTAATGGTTTTTATGTTTTTAAGTTCATTTTAG
1 ATTTAGGGCGTTACAGATTTTATGTCTCATTTTTAATGGTTTTTATGTTTTTAAGTTCATTTTAG
11737408 CTTAATCTAGCTAGCACTAGGGGTTAATTTGCAAAACTGTTAAAGGTTAAGGGACTTGCCACGGT
66 CTTAATCTAGCTAGCAC-AGGGGTTAATTTGCAAAACTGTTAAAGGTTAAGGGACTTGCCACGGT
11737473 TGTTTTTGAATAGATTTTCAAGTTATTTGATAAATTAAAAATCTTGGTTGTAAAATAAACATGTT
130 TGTTTTTGAATAGATTTTCAAGTTATTTGATAAATTAAAAATCTTGGTTGTAAAATAAACATGTT
*
11737538 TTTTTAAGTGATTTTTAATGAAATTGCAAAAAATGATTAAATTGTT
195 TTGTTAAGTGATTTTTAATGAAATTGCAAAAAATGATTAAATTGTT
* *
11737584 ATTTGGGGCGTTACAGATTTTATGTCTCGTTTTTAATGGTTTTTATGTTTTTAAGTTCATTTTAG
1 ATTTAGGGCGTTACAGATTTTATGTCTCATTTTTAATGGTTTTTATGTTTTTAAGTTCATTTTAG
*
11737649 CTTAATCTAGCTAGCA-AGGGGTTAATTTGCAAAACTGTTAAAGGTTAAGGGACTTGCCATGGTT
66 CTTAATCTAGCTAGCACAGGGGTTAATTTGCAAAACTGTTAAAGGTTAAGGGACTTGCCACGGTT
*
11737713 GTTTTTGAATAGATTTTCAAGTTATTTGATAAATTAATAATCTTGGTTGTAAAATAAACATGTTT
131 GTTTTTGAATAGATTTTCAAGTTATTTGATAAATTAAAAATCTTGGTTGTAAAATAAACATGTTT
*
11737778 TGTTAAGTGATTTTTAATGAAATTGCAAATAATGATTAAATTGTT
196 TGTTAAGTGATTTTTAATGAAATTGCAAAAAATGATTAAATTGTT
11737823 A
1 A
11737824 AAAATGTAAA
Statistics
Matches: 234, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
239 155 0.66
241 79 0.34
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (240 bp):
ATTTAGGGCGTTACAGATTTTATGTCTCATTTTTAATGGTTTTTATGTTTTTAAGTTCATTTTAG
CTTAATCTAGCTAGCACAGGGGTTAATTTGCAAAACTGTTAAAGGTTAAGGGACTTGCCACGGTT
GTTTTTGAATAGATTTTCAAGTTATTTGATAAATTAAAAATCTTGGTTGTAAAATAAACATGTTT
TGTTAAGTGATTTTTAATGAAATTGCAAAAAATGATTAAATTGTT
Found at i:11743830 original size:15 final size:15
Alignment explanation
Indices: 11743810--11743838 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11743800 GTATTGTTGC
11743810 TTGATAACACGGTGA
1 TTGATAACACGGTGA
11743825 TTGATAACACGGTG
1 TTGATAACACGGTG
11743839 TGTGAAGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:11749738 original size:27 final size:27
Alignment explanation
Indices: 11749708--11749762 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
11749698 ACCAAATTGA
11749708 TAATATTTATAAATTTTGAGAATTAAC
1 TAATATTTATAAATTTTGAGAATTAAC
11749735 TAATATTTATAAATTTTGAGAATTAAC
1 TAATATTTATAAATTTTGAGAATTAAC
11749762 T
1 T
11749763 TTTGAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (27 bp):
TAATATTTATAAATTTTGAGAATTAAC
Found at i:11752545 original size:17 final size:16
Alignment explanation
Indices: 11752517--11752577 Score: 67
Period size: 16 Copynumber: 3.9 Consensus size: 16
11752507 ACAACGAAGG
11752517 AGAAGA-AA-AAGGAA
1 AGAAGAGAAGAAGGAA
11752531 AGAAGGAGAAGAAGGAA
1 AGAA-GAGAAGAAGGAA
11752548 AGAAGAGAAGAAGAAGAA
1 AGAAGAGAAGAAG--GAA
11752566 AGAA-A-AAGAAGG
1 AGAAGAGAAGAAGG
11752578 GGAGGAGGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.12
15 2 0.05
16 17 0.40
17 11 0.26
18 7 0.17
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (16 bp):
AGAAGAGAAGAAGGAA
Found at i:11752556 original size:22 final size:21
Alignment explanation
Indices: 11752512--11752574 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
11752502 CGGGAACAAC
11752512 GAAGGAGAAGAA-AAAGGAA-A
1 GAAGGAGAAGAAGAAA-GAAGA
11752532 GAAGGAGAAGAAGGAAAGAAGA
1 GAAGGAGAAGAA-GAAAGAAGA
*
11752554 GAAGAAGAAGAAAGAAA-AAGA
1 GAAGGAGAAG-AAGAAAGAAGA
11752575 AGGGGAGGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 12 0.32
21 7 0.18
22 17 0.45
23 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (21 bp):
GAAGGAGAAGAAGAAAGAAGA
Found at i:11753070 original size:17 final size:15
Alignment explanation
Indices: 11753056--11753116 Score: 52
Period size: 17 Copynumber: 4.0 Consensus size: 15
11753046 AAAAAATAGT
11753056 ATAAAAAATAAAAT-
1 ATAAAAAATAAAATA
* * *
11753070 ATTAAAAATATATTA
1 ATAAAAAATAAAATA
*
11753085 ATGAAAAATAAAATA
1 ATAAAAAATAAAATA
*
11753100 CGAGAAAAAATAAAATA
1 --ATAAAAAATAAAATA
11753117 CGAAAAAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
14 11 0.31
15 12 0.33
17 13 0.36
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (15 bp):
ATAAAAAATAAAATA
Found at i:11753117 original size:17 final size:16
Alignment explanation
Indices: 11753088--11753126 Score: 69
Period size: 17 Copynumber: 2.4 Consensus size: 16
11753078 TATATTAATG
11753088 AAAAATAAAATACGAGA
1 AAAAATAAAATACGA-A
11753105 AAAAATAAAATACGAA
1 AAAAATAAAATACGAA
11753121 AAAAAT
1 AAAAAT
11753127 TTGGGGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.74, C:0.05, G:0.08, T:0.13
Consensus pattern (16 bp):
AAAAATAAAATACGAA
Found at i:11753766 original size:298 final size:295
Alignment explanation
Indices: 11753159--11754369 Score: 1597
Period size: 298 Copynumber: 4.1 Consensus size: 295
11753149 AGTTTTTTGT
* * * * * *
11753159 TAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAA
1 TAAAATAATATAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAA
* * * * * *
11753224 AAATACGAACAATGTGCCAAAGTCGGGGTTATTTATTAAATTAACATAAAAAA-ACTTAAATAAT
66 AAATACGAAAAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAATACTTAAATAAT
* **
11753288 ACATTTGAAAGA---TTT--T---AT--GCT--AAAATAAAATACGAAAATAATATATTTT-AAA
131 ACATTTGAAACATTTTTTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAA
* *
11753340 AATACTATACGAAAATAAAAAATACGAATAAAGTGTTAAAATCAGGGTTATTTATTAAAAAAATA
196 AATAATATACG--AA-AAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATT-AAAAAATA
*
11753405 TAAAAAACACTTAAATAATACATTTGAAACATTATATAC
257 TAAAAAACACTTAAATAATACATTTGAAACATTATGTAC
*
11753444 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAGTAAGATACGAAAATAAA
1 TAAAATAATAT-AAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAA
* * * * * *
11753509 AAATTAGGAAGAAAGTGTCAAAATCAAGGTTATTTATTAAATTAATATAAAGAAACACTTAAGTA
65 AAAATACGAAAAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAA-AAATACTTAAATA
11753574 ATACATTTGAAACATTTTTTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAA
129 ATACATTTGAAACATTTTTTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAA
11753639 AAAATAATATACG-AAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAATAT
194 AAAATAATATACGAAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATT-AAAAAATAT
*
11753703 AAAAAAATACTTAAATAATACATTTGAAACATTATGTAC
258 -AAAAAACACTTAAATAATACATTTGAAACATTATGTAC
11753742 TAAAATAATATGAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAA
1 TAAAATAATAT-AAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAA
* *
11753807 AAAATACGAAAAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAAATACTTACAC
65 AAAATACGAAAAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATAT--AAAAAATACTTAAAT
*
11753872 AATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTT
128 AATACATTTGAAACATTTTTTACTAAAATAATAT-AAAAAATAAAATACGAAAATAATATA-TTT
*
11753937 TAAAAAATAATATACG---AAAAATACGAATAAAGTGTTAAAATCAGGGTTATTTATTAAAAAAT
191 TAAAAAATAATATACGAAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAT
11753999 ATAAAAAACACTTAAATAATACATTTGAAACATTATGTAC
256 ATAAAAAACACTTAAATAATACATTTGAAACATTATGTAC
11754039 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAAATAAGATAC-----TAA
1 TAAAATAATAT-AAGAAATAAAATACGAAAATAATATATTTT-AAAAAATAAGATACGAAAATAA
* ** *
11754099 AAAAATACGAATAAAGTG-CTAAAATCAGGGTTATTTATTAAAAAAATATAAATAATACTTAAAT
64 AAAAATACGAAAAAAGTGTC-AAAATCAGGGTTATTTATTAAATTAATATAAAAAATACTTAAAT
* * *
11754163 AATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATATGAAAATAATATATTTT
128 AATACATTTGAAACATTTTTTACTAAAATAATATAAA-AAATAAAATACGAAAATAATATATTTT
* * * * *
11754228 AAAAAAGAAGATACGAAAATAAAAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTTAAT
192 AAAAAATAATATACG---A-AAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTA-TTAAA
* * * * *
11754293 TAATATAAAAAAACACTTACATAATACATTTGAAACATTTTTTGC
252 AAATAT-AAAAAACACTTAAATAATACATTTGAAACATTATGTAC
* * *
11754338 TAAAATAAAATAAAAAATAATATACGAAAATA
1 TAAAATAATATAAGAAATAAAATACGAAAATA
11754370 TTTTACTTAT
Statistics
Matches: 830, Mismatches: 63, Indels: 53
0.88 0.07 0.06
Matches are distributed among these distances:
285 11 0.01
286 88 0.11
287 3 0.00
288 21 0.03
290 20 0.02
291 68 0.08
292 1 0.00
293 48 0.06
296 2 0.00
297 160 0.19
298 196 0.24
299 123 0.15
300 57 0.07
301 32 0.04
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (295 bp):
TAAAATAATATAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAA
AAATACGAAAAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAATACTTAAATAAT
ACATTTGAAACATTTTTTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAA
AATAATATACGAAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAATATAAA
AAACACTTAAATAATACATTTGAAACATTATGTAC
Found at i:11754204 original size:444 final size:443
Alignment explanation
Indices: 11753159--11754369 Score: 1665
Period size: 444 Copynumber: 2.7 Consensus size: 443
11753149 AGTTTTTTGT
* * *
11753159 TAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAA
1 TAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAAT-----ACTAAAA
* * * * * ** * *
11753224 AAATACGAACAATGTGCCAAAGTCGGGGTTATTTATTAAATTAACATAAAAAAACTTAAATAATA
61 AAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAATACTTAAATAATA
* **
11753289 CATTTGAAAGA-T-T-T--T---AT--GCT-A-AAATAAAATACGAAAATAATATATTTT-AAAA
126 CATTTGAAACATTATGTACTAAAATAATATAAGAAATAAAATACGAAAATAATATATTTTAAAAA
** * * *
11753341 ATACTATACGAAAAT-AAAAAATACGAATAAAGTGTTAAAATCAGGGTTATTTATTAAA--AAAA
191 ATAAGATACGAAAATAAAAAAATACGAAAAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATA
* * * * * *
11753403 TATAAAAAACACTTAAATAATACATTTGAAACATTATATACTAAAATAATATAAAGAAATAAAAT
256 TAAAAAAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAAT
* *
11753468 ACGAAAATAATATATTTTAAAAAGTAAGATACGAAAATAAAAAATTAGGAAGAAAGTGTCAAAAT
321 ACGAAAATAATATATTTTAAAAAATAAGATACG-----AAAAAATTACGAAGAAAGTGTCAAAAT
* * * *
11753533 CAAGGTTATTTATTAAATTAATATAAAGAAACACTTAAGTAATACATTTGAAACATTTTTTAC
381 CAAGGTTATTTATTAAATAAATATAAAGAAACACTTAAATAATACATTTGAAACATTATGTAC
* *
11753596 TAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATA
1 TAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATACTAAAAAAATA
*
11753661 CGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAATATAAAAAAATACTTAAATAATACAT
66 CGAATAAAGTGCTAAAATCAGGGTTATTTATT-AAAAAA-ATATAAAAATACTTAAATAATACAT
11753726 TTGAAACATTATGTACTAAAATAATATGAAGAAATAAAATACGAAAATAATATATTTTAAAAAAT
129 TTGAAACATTATGTACTAAAATAATAT-AAGAAATAAAATACGAAAATAATATATTTTAAAAAAT
11753791 AAGATACGAAAATAAAAAAATACGAAAAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATA
193 AAGATACGAAAATAAAAAAATACGAAAAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATA
* *
11753856 AAAAAAATACTTACACAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATAC
258 AAAAAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATAC
* * * *
11753921 GAAAATAATATATTTTTAAAAAATAATATACG-AAAAA-TACGAATAAAGTGTTAAAATCAGGGT
323 GAAAATAATATA-TTTTAAAAAATAAGATACGAAAAAATTACGAAGAAAGTGTCAAAATCAAGGT
11753984 TATTTATTAAA-AAATATAAA-AAACACTTAAATAATACATTTGAAACATTATGTAC
387 TATTTATTAAATAAATATAAAGAAACACTTAAATAATACATTTGAAACATTATGTAC
*
11754039 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAAATAAGATACTAAAAAAA
1 TAAAATAATATAAA-AAATAAAATACGAAAATAATATATTTT-AAAAAATAAAATACTAAAAAAA
11754104 TACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAATAATACTTAAATAATACA
64 TACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAA-AATACTTAAATAATACA
*
11754169 TTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATATGAAAATAATATATTTTAAAAAA
128 TTTGAAACATTATGTACTAAAATAATAT-AAGAAATAAAATACGAAAATAATATATTTTAAAAAA
* * * *
11754234 GAAGATACGAAAATAAAAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTTAATTAATAT
192 TAAGATACGAAAATAAAAAAATACGAAAAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATAT
* *
11754299 -AAAAAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAAAAT-AAAAAATAATATA
257 AAAAAAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATA
11754362 CGAAAATA
322 CGAAAATA
11754370 TTTTACTTAT
Statistics
Matches: 697, Mismatches: 54, Indels: 41
0.88 0.07 0.05
Matches are distributed among these distances:
432 37 0.05
433 4 0.01
434 29 0.04
435 1 0.00
436 1 0.00
437 51 0.07
439 1 0.00
442 22 0.03
443 99 0.14
444 183 0.26
445 87 0.12
446 6 0.01
447 27 0.04
448 17 0.02
449 41 0.06
451 74 0.11
452 17 0.02
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (443 bp):
TAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATACTAAAAAAATA
CGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAATACTTAAATAATACATTT
GAAACATTATGTACTAAAATAATATAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAG
ATACGAAAATAAAAAAATACGAAAAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAA
AAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAA
AATAATATATTTTAAAAAATAAGATACGAAAAAATTACGAAGAAAGTGTCAAAATCAAGGTTATT
TATTAAATAAATATAAAGAAACACTTAAATAATACATTTGAAACATTATGTAC
Found at i:11754401 original size:152 final size:150
Alignment explanation
Indices: 11753310--11754369 Score: 1280
Period size: 147 Copynumber: 7.1 Consensus size: 150
11753300 TTTTATGCTA
* ** *
11753310 AAATAAAATACGAAAATAATATATTTT-AAAAATACTATACGAAAAT-AAAAAATACGAATAAAG
1 AAATAAAATACGAAAATAATATATTTTAAAAAAGAAAATAC-AAAATAAAAAAATACGAAGAAAG
**
11753373 TGTTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATT
65 TGCCAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATT
* *
11753438 ATATACTAAAATAATATAAAG
130 ATGTACTAAAATAAAATAAAG
* * *
11753459 AAATAAAATACGAAAATAATATATTTT-AAAAAGTAAGATACGAAAATAAAAAATTAGGAAGAAA
1 AAATAAAATACGAAAATAATATATTTTAAAAAAG-AAAATAC-AAAATAAAAAAATACGAAGAAA
* * ** *
11753523 GTGTCAAAATCAAGGTTATTTATTAAATTAATATAAAGAAACACTTAAGTAATACATTTGAAACA
64 GTGCCAAAATCAGGGTTATTTATTAAAAAAATATAAA-AAACACTTAAATAATACATTTGAAACA
* * *
11753588 TTTTTTACTAAAATAATATAAA-
128 TTATGTACTAAAATAAAATAAAG
* * * *
11753610 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATAC----GAAAAAAATACGAATAAAGT
1 AAATAAAATACGAAAATAATATATTTTAAAAAAGAAAATACAAAATAAAAAAATACGAAGAAAGT
* * *
11753671 GCTAAAATCAGGGTTATTTATTGAAAAAATATAAAAAAATACTTAAATAATACATTTGAAACATT
66 GCCAAAATCAGGGTTATTTATTAAAAAAATAT-AAAAAACACTTAAATAATACATTTGAAACATT
* *
11753736 ATGTACTAAAATAATATGAAG
130 ATGTACTAAAATAAAATAAAG
* * *
11753757 AAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAAAAAG
1 AAATAAAATACGAAAATAATATATTTTAAAAAAGAAAATAC-AAAATAAAAAAATACGAAGAAAG
* * * * * *
11753822 TGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAAATACTTACACAATACATTTGAAACA
65 TGCCAAAATCAGGGTTATTTATTAAA--AAAATATAAAAAACACTTAAATAATACATTTGAAACA
* * * * *
11753887 TTTTTTGCTAAAATAATATAAAA
128 TTATGTACTAAAATAAAATAAAG
* * * *
11753910 AAATAAAATACGAAAATAATATATTTT---TAA-AAAAT--AATATACGAAAAATACGAATAAAG
1 AAATAAAATACGAAAATAATATATTTTAAAAAAGAAAATACAAAATA-AAAAAATACGAAGAAAG
**
11753969 TGTTAAAATCAGGGTTATTTATT-AAAAAATATAAAAAACACTTAAATAATACATTTGAAACATT
65 TGCCAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATT
*
11754033 ATGTACTAAAATAATATAAAG
130 ATGTACTAAAATAAAATAAAG
*
11754054 AAATAAAATACGAAAATAATATATTTTAAAAAA-ATAAGATAC----TAAAAAAATACGAATAAA
1 AAATAAAATACGAAAATAATATATTTTAAAAAAGA-AA-ATACAAAATAAAAAAATACGAAGAAA
* * *
11754114 GTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAATAATACTTAAATAATACATTTGAAACAT
64 GTGCCAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACAT
*
11754179 TATGTACTAAAATAATATAAAG
129 TATGTACTAAAATAAAATAAAG
* *
11754201 AAATAAAATATGAAAATAATATATTTTAAAAAAGAAGATACGAAAATAAAAAAATACGAAGAAAG
1 AAATAAAATACGAAAATAATATATTTTAAAAAAGAAAATAC-AAAATAAAAAAATACGAAGAAAG
* ** *
11754266 TGCCAAAATCAGGGTTATTTATTTAATTAATATAAAAAAACACTTACATAATACATTTGAAACAT
65 TGCCAAAATCAGGGTTATTTATTAAAAAAATAT-AAAAAACACTTAAATAATACATTTGAAACAT
* * *
11754331 TTTTTGCTAAAATAAAATAAA-
129 TATGTACTAAAATAAAATAAAG
*
11754352 AAATAATATACGAAAATA
1 AAATAAAATACGAAAATA
11754370 TTTTACTTAT
Statistics
Matches: 801, Mismatches: 81, Indels: 56
0.85 0.09 0.06
Matches are distributed among these distances:
144 78 0.10
146 135 0.17
147 178 0.22
148 3 0.00
149 38 0.05
150 13 0.02
151 142 0.18
152 136 0.17
153 73 0.09
154 5 0.01
ACGTcount: A:0.57, C:0.07, G:0.08, T:0.29
Consensus pattern (150 bp):
AAATAAAATACGAAAATAATATATTTTAAAAAAGAAAATACAAAATAAAAAAATACGAAGAAAGT
GCCAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTA
TGTACTAAAATAAAATAAAG
Found at i:11756335 original size:72 final size:72
Alignment explanation
Indices: 11756242--11756382 Score: 194
Period size: 72 Copynumber: 2.0 Consensus size: 72
11756232 AGTCTAAGCG
* * * *
11756242 ATCGCATTCACGTTCGACTGATACTTCTTATCAT-TCGGATTTGGCAAGCAATAACTATTTCCTG
1 ATCGCATTCACATTCGACTGATACTTATTATAATCT-GGATTTGGCAAGCAATAACTATTTCCCG
11756306 GGCTCGTC
65 GGCTCGTC
* ** *
11756314 ATCGCATTCACATTCGGCTGATACTTATTATAATCTGGATTTGGCGGGCAATGACTATTTCCCGG
1 ATCGCATTCACATTCGACTGATACTTATTATAATCTGGATTTGGCAAGCAATAACTATTTCCCGG
11756379 GCTC
66 GCTC
11756383 ATCGAGGGGC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 59 0.98
73 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (72 bp):
ATCGCATTCACATTCGACTGATACTTATTATAATCTGGATTTGGCAAGCAATAACTATTTCCCGG
GCTCGTC
Found at i:11756941 original size:17 final size:17
Alignment explanation
Indices: 11756921--11756959 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
11756911 AATACATTAC
11756921 AACATTAATCT-AATTGG
1 AACATTAAT-TAAATTGG
*
11756938 AACATTGATTAAATTGG
1 AACATTAATTAAATTGG
11756955 AACAT
1 AACAT
11756960 ACTATTACCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (17 bp):
AACATTAATTAAATTGG
Found at i:11761768 original size:16 final size:17
Alignment explanation
Indices: 11761747--11761787 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
11761737 AAATTATACC
*
11761747 TTCTTTTTT-CTTTTCT
1 TTCTTTTTTCCTTCTCT
11761763 TTCTTTTTTCCTTCTCT
1 TTCTTTTTTCCTTCTCT
11761780 TTCTTTTT
1 TTCTTTTT
11761788 CTTCATTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (17 bp):
TTCTTTTTTCCTTCTCT
Found at i:11761791 original size:15 final size:16
Alignment explanation
Indices: 11761747--11761791 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
11761737 AAATTATACC
*
11761747 TTCTTTTTTCTTTTCT
1 TTCTTTTTTCTTCTCT
11761763 TTCTTTTTTCCTTCTCT
1 TTCTTTTTT-CTTCTCT
11761780 TTC-TTTTTCTTC
1 TTCTTTTTTCTTC
11761792 ATTCTCTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 4 0.15
16 14 0.52
17 9 0.33
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
TTCTTTTTTCTTCTCT
Found at i:11761798 original size:19 final size:17
Alignment explanation
Indices: 11761747--11761799 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
11761737 AAATTATACC
*
11761747 TTCTTTTTTC-TTTTCT
1 TTCTTTTTTCATTCTCT
*
11761763 TTCTTTTTTCCTTCTCT
1 TTCTTTTTTCATTCTCT
11761780 TTCTTTTTCTTCATTCTCT
1 TTC-TTTT-TTCATTCTCT
11761799 T
1 T
11761800 CTCCTTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
16 10 0.31
17 8 0.25
18 4 0.12
19 10 0.31
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (17 bp):
TTCTTTTTTCATTCTCT
Found at i:11761810 original size:25 final size:25
Alignment explanation
Indices: 11761773--11761830 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
11761763 TTCTTTTTTC
**
11761773 CTTCT-CTTTCTTTTTCTTCATTCT
1 CTTCTCCTTTCTTTCCCTTCATTCT
* *
11761797 CTTCTCCTTTCTTTCCCTTTATTTT
1 CTTCTCCTTTCTTTCCCTTCATTCT
11761822 CTTCTCCTT
1 CTTCTCCTT
11761831 GCTGCTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.64
Consensus pattern (25 bp):
CTTCTCCTTTCTTTCCCTTCATTCT
Found at i:11767199 original size:16 final size:16
Alignment explanation
Indices: 11767178--11767210 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11767168 ATAACAACTT
*
11767178 ATTTACCATCTTCAAC
1 ATTTACCAACTTCAAC
11767194 ATTTACCAACTTCAAC
1 ATTTACCAACTTCAAC
11767210 A
1 A
11767211 AACCCACCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.30, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTTACCAACTTCAAC
Found at i:11769023 original size:92 final size:91
Alignment explanation
Indices: 11768820--11769015 Score: 286
Period size: 91 Copynumber: 2.2 Consensus size: 91
11768810 ACTCTTTGTA
* * *
11768820 TAAGGGTTGGGAGATGCATGTCTAAAGCAACGCTTAAATAAGAGTTGCCTTTGTGTAGTCCTAAG
1 TAAGGGTTGGGATATGTATGCCTAAAGCAACGCTTAAATAAGAGTTGCCTTTGTGTAGTCCTAAG
*
11768885 ACGACACTTTTGTGGCGACATTTTCC
66 ACGACACTTTTGTGACGACATTTTCC
* * * **
11768911 TAAGGGTTGGTATATGTATGCCTAAAGTAACGCTTGAATAAGAGTTGGTTTTTGTGTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAAGCAACGCTTAAATAAGAGTT-GCCTTTGTGTAGTCCTAA
11768976 GACGACACTTTTGTGACGACA-TTTCC
65 GACGACACTTTTGTGACGACATTTTCC
*
11769002 TAAGTGTTGGGATA
1 TAAGGGTTGGGATA
11769016 GACTATGCTT
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
91 57 0.61
92 36 0.39
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.33
Consensus pattern (91 bp):
TAAGGGTTGGGATATGTATGCCTAAAGCAACGCTTAAATAAGAGTTGCCTTTGTGTAGTCCTAAG
ACGACACTTTTGTGACGACATTTTCC
Found at i:11769193 original size:132 final size:132
Alignment explanation
Indices: 11768911--11769411 Score: 808
Period size: 132 Copynumber: 3.8 Consensus size: 132
11768901 GACATTTTCC
* * * * *
11768911 TAAGGGTTGGTATATGTATGCCTAAAGTAACGCTTGAATAAGAGTTGGTTTTTGTGTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
*
11768976 GACGACACTTTTGTGACGACA-TTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
66 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
11769040 TA
131 TA
* * *
11769042 TAAGGGTTAGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTCTGTGTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
* * *
11769107 GAAGACACTTTTGTGGTGACACTTCCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
66 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
11769172 TA
131 TA
*
11769174 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATCAGAGTTGGCTTTTGTCTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
* * *
11769239 GACGACACTTTTGTGGCGACACTTTTCTAAGTGTTGGGATAGACTACGCTTTGGCCAACTTTTTG
66 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
11769304 TA
131 TA
* *
11769306 TAAGGGTTGGGATATGTATGCCTAAGACAATGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
*
11769371 GACGACAGTTTTAG-GGCGACACTTTCCTAAGTGTTGGGATA
66 GACGACACTTTT-GTGGCGACACTTTCCTAAGTGTTGGGATA
11769412 CACTTGTCAG
Statistics
Matches: 343, Mismatches: 25, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
131 77 0.22
132 265 0.77
133 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (132 bp):
TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
TA
Found at i:11769702 original size:21 final size:21
Alignment explanation
Indices: 11769655--11769702 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
11769645 TTAGTTTAGG
* * *
11769655 GTTTAAGGTTTAGTGCTTAAA
1 GTTTATGGTTTAGAGATTAAA
* *
11769676 GATTATGGTTTAGAGATTATA
1 GTTTATGGTTTAGAGATTAAA
11769697 GTTTAT
1 GTTTAT
11769703 ATAGTTTAAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.23, T:0.46
Consensus pattern (21 bp):
GTTTATGGTTTAGAGATTAAA
Found at i:11769770 original size:22 final size:21
Alignment explanation
Indices: 11769745--11769793 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
11769735 GGTTTGGGGT
11769745 TTATGATTTTAGGGTTTTATGA
1 TTATGA-TTTAGGGTTTTATGA
* *
11769767 TTATGGATTTGGGGTTTTGTGA
1 TTAT-GATTTAGGGTTTTATGA
11769789 TTATG
1 TTATG
11769794 GGTTTGCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 21 0.88
23 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (21 bp):
TTATGATTTAGGGTTTTATGA
Found at i:11769794 original size:22 final size:22
Alignment explanation
Indices: 11769756--11769799 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
11769746 TATGATTTTA
11769756 GGGTTTTATGATTATGGATTTG
1 GGGTTTTATGATTATGGATTTG
* *
11769778 GGGTTTTGTGATTATGGGTTTG
1 GGGTTTTATGATTATGGATTTG
11769800 CATTAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (22 bp):
GGGTTTTATGATTATGGATTTG
Found at i:11769797 original size:37 final size:37
Alignment explanation
Indices: 11769721--11769798 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
11769711 AGGTTTTAGA
* * * *
11769721 GTTTTGTGTTTATGGGTTTGGGGTTTATGATTTTAGG
1 GTTTTATGATTATGGATTTGGGGTTTATGATTATAGG
*
11769758 GTTTTATGATTATGGATTTGGGGTTTTGTGATTAT-GG
1 GTTTTATGATTATGGATTTGGGG-TTTATGATTATAGG
11769795 GTTT
1 GTTT
11769799 GCATTAATCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 26 0.74
38 9 0.26
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.54
Consensus pattern (37 bp):
GTTTTATGATTATGGATTTGGGGTTTATGATTATAGG
Found at i:11770483 original size:47 final size:47
Alignment explanation
Indices: 11770414--11770539 Score: 225
Period size: 47 Copynumber: 2.7 Consensus size: 47
11770404 TTAAGAATGT
11770414 ATGCATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATA
1 ATGCATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATA
*
11770461 ATGCATACTTTACCCAGATAAAGTATGTATTAGCAGATTCACTAATA
1 ATGCATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATA
* *
11770508 ATGCATACTTTACCCGGGTAAAGTATGCATTA
1 ATGCATACTTTACCCGGATAAAGTATGTATTA
11770540 TTTATTTGAT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 75 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (47 bp):
ATGCATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATA
Found at i:11773235 original size:7 final size:6
Alignment explanation
Indices: 11773201--11773243 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
11773191 TTCAATCTTT
*
11773201 ATTTTA ATTTTA ATTTTA ATTTTT ATTTTAA ATTTTAA ATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTT-A ATTTT-A ATTTT
11773244 TTTAGTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 22 0.65
7 12 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTTA
Found at i:11773419 original size:36 final size:35
Alignment explanation
Indices: 11773390--11773774 Score: 308
Period size: 36 Copynumber: 10.5 Consensus size: 35
11773380 TTAAATAATA
* * *
11773390 TCTATCCCAACCTTTTTAAGGTTGCTTTAAACAGG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
* * *
11773425 TCTATCCCAACTTTTTTAAAAGTTACCTTAGACATGG
1 TCTATCCCAACCTTTTT-AAGGTTGCCTTAGACAT-G
*
11773462 TCTATCCCAACCTTTTTAAGGTTGCCTTAGAGGA-G
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGA-CATG
* *
11773497 TCTATTCCGACCTTTTTTAAAGGTTGCCTTAGACATGG
1 TCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAT-G
* * *
11773535 TCTATCCTAACCTGTTTAAGGTTGCCTTAGACAGG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
**
11773570 TCTATCCCAACCTTTTTTTATAGGTTGTTTTAGACAATG
1 TCTATCCCAACC--TTTTTA-AGGTTGCCTTAGAC-ATG
* * *
11773609 TCGATCCCAACCTTTTTAAGGTTGCATTAGAC-GG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
* * *
11773643 CTCTATCCCAACCATTTTTAAAAGTTGCCTTAAACAAG
1 -TCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACATG
* ** * * *
11773681 AACTATATCGACCTTTTTAAGGTTGTCTTAGACAGG
1 -TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
* * * *
11773717 TTTATCACAACCTTTTTCAAAGGTTGGTCTTA-ACTAGG
1 TCTATCCCAACCTTTTT--AAGGTT-GCCTTAGAC-ATG
11773755 TCTATCCCAACCCTTTTTAA
1 TCTATCCCAA-CCTTTTTAA
11773775 AGGTCGGCAT
Statistics
Matches: 282, Mismatches: 48, Indels: 38
0.77 0.13 0.10
Matches are distributed among these distances:
34 1 0.00
35 62 0.22
36 77 0.27
37 74 0.26
38 48 0.17
39 20 0.07
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (35 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
Found at i:11773553 original size:73 final size:74
Alignment explanation
Indices: 11773390--11773774 Score: 385
Period size: 73 Copynumber: 5.3 Consensus size: 74
11773380 TTAAATAATA
* * *
11773390 TCTATCCCAACCTTTTTAAGGTTGCTTTA-AACAGGTCTATCCCAA-CTTTTTTAAAAGTTACCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGAGCAGGTCTATCCCAACCTTTTTTAAAAGTTGCCT
11773453 TAGACATGG
66 TAGACATGG
* * * *
11773462 TCTATCCCAACCTTTTTAAGGTTGCCTTAGAGGA-GTCTATTCCGACCTTTTTTAAAGGTTGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGAGCAGGTCTATCCCAACCTTTTTTAAAAGTTGCCT
11773526 TAGACATGG
66 TAGACATGG
* * * * **
11773535 TCTATCCTAACCTGTTTAAGGTTGCCTTAGA-CAGGTCTATCCCAACCTTTTTTTATAGGTTGTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGAGCAGGTCTATCCCAACC-TTTTTTAAAAGTTGCC
11773599 TTAGACAAT-G
65 TTAGAC-ATGG
* * *
11773609 TCGATCCCAACCTTTTTAAGGTTGCATTAGA-C-GGCTCTATCCCAACCATTTTTAAAAGTTGCC
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGAGCAGG-TCTATCCCAACCTTTTTTAAAAGTTGCC
* * *
11773672 TTAAACAAGA
65 TTAGACATGG
* ** * * * * * * *
11773682 ACTATATCGACCTTTTTAAGGTTGTCTTAGA-CAGGTTTATCACAACCTTTTTCAAAGGTTGGTC
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGAGCAGGTCTATCCCAACCTTTTTTAAAAGTT-GCC
11773746 TTA-AC-TAGG
65 TTAGACAT-GG
11773755 TCTATCCCAACCCTTTTTAA
1 TCTATCCCAA-CCTTTTTAA
11773775 AGGTCGGCAT
Statistics
Matches: 256, Mismatches: 46, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
72 39 0.15
73 139 0.54
74 76 0.30
75 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (74 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGAGCAGGTCTATCCCAACCTTTTTTAAAAGTTGCCT
TAGACATGG
Found at i:11773770 original size:147 final size:144
Alignment explanation
Indices: 11773391--11773774 Score: 416
Period size: 147 Copynumber: 2.6 Consensus size: 144
11773381 TAAATAATAT
* * * **
11773391 CTATCCCAACCTTTTTAAGGTTGCTTTAAACAGGTCTATCCCAA-CTTTTTTAAAAGTTACCTTA
1 CTATCCTAACCTTTTTAAGGTTGC-TTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGTCTTA
* * * * * *
11773455 GACATGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGAGGAGTCTATTCCGACCTTTTTTAAAGG
65 GACA-GGTCTATCCCAACCTTTTTAAGGTTGCATTAGAGGACTCTATCCCAACCATTTTTAAAAG
* * **
11773520 TTGCCTTAGACATGGT
129 TTGCCTTAAACAAGAA
* * *
11773536 CTATCCTAACCTGTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTTATAGGTTGTTTT
1 CTATCCTAACCTTTTTAAGGTTG-CTTAGACAGGTCTATCCCAACC-TTTTTTAAAGGTTGTCTT
* *
11773601 AGACAATGTCGATCCCAACCTTTTTAAGGTTGCATTAGACGG-CTCTATCCCAACCATTTTTAAA
64 AGAC-AGGTCTATCCCAACCTTTTTAAGGTTGCATTAGA-GGACTCTATCCCAACCATTTTTAAA
11773665 AGTTGCCTTAAACAAGAA
127 AGTTGCCTTAAACAAGAA
* * * * *
11773683 CTAT-ATCGACCTTTTTAAGGTTGTCTTAGACAGGTTTATCACAACCTTTTTCAAAGGTTGGTCT
1 CTATCCT-AACCTTTTTAAGGTTG-CTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTT-GTCT
11773747 TA-ACTAGGTCTATCCCAACCCTTTTTAA
63 TAGAC-AGGTCTATCCCAA-CCTTTTTAA
11773775 AGGTCGGCAT
Statistics
Matches: 199, Mismatches: 32, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
145 39 0.20
146 27 0.14
147 130 0.65
148 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (144 bp):
CTATCCTAACCTTTTTAAGGTTGCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGTCTTAG
ACAGGTCTATCCCAACCTTTTTAAGGTTGCATTAGAGGACTCTATCCCAACCATTTTTAAAAGTT
GCCTTAAACAAGAA
Found at i:11774328 original size:14 final size:14
Alignment explanation
Indices: 11774311--11774360 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
11774301 TGGATTAAAG
11774311 CTTAATTAAATTAA
1 CTTAATTAAATTAA
*
11774325 CTTAATTAACATAAA
1 CTTAATTAA-ATTAA
* *
11774340 CATAATTTAATTAA
1 CTTAATTAAATTAA
11774354 CTTAATT
1 CTTAATT
11774361 CAACATTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 19 0.63
15 11 0.37
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (14 bp):
CTTAATTAAATTAA
Done.