Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 80 of 125
Found at i:24975256 original size:92 final size:91
Alignment explanation
Indices: 24975062--24975631 Score: 374
Period size: 92 Copynumber: 6.2 Consensus size: 91
24975052 CTACTGCAAT
* * * * *
24975062 TTTAGAGGTATAAGATTTG-T-GTATGGCTTCAATCTGCCCCTCTGGATTTGGGGTGTAAGATTG
1 TTTAG-GGTATAAGATTGGATGGT-T-GCTTCAATCTACCCCTCTAGATTTAGGGTATAAGATTG
* * *
24975125 GATGCGATGG-TTTCAGTCTGCCCATTTGGA
63 GATG-GATGGCTTT-AATCTACCCTTTTGGA
* * *
24975155 TTT-GTGGTATAATATTGGATGGTTGCTTCAATCTGCCCCTCTAAATTTAGGGTATAAGATTGGA
1 TTTAG-GGTATAAGATTGGATGGTTGCTTCAATCTACCCCTCTAGATTTAGGGTATAAGATTGGA
* **
24975219 TGCGATGGCTTTAATTTACCCTTTTATA
65 TG-GATGGCTTTAATCTACCCTTTTGGA
* * * * * * *
24975247 TTTAGGGTATAAGATTGGATGG-TGACTTTAATCTACCCTTTTGGATTTAGGGTGTATGATTAGA
1 TTTAGGGTATAAGATTGGATGGTTG-CTTCAATCTACCCCTCTAGATTTAGGGTATAAGATTGGA
* **
24975311 T-GATGGTTTTTGTCTACCCTTTTGGA
65 TGGATGGCTTTAATCTACCCTTTTGGA
* * * * *
24975337 TTTAGGGTATAAGATTGGATGTGATGGCTTTAATTTACCCTTTTAGATTT-GAGGTATAAGATTG
1 TTTAGGGTATAAGATTGGATG-G-TTGCTTCAATCTACCCCTCTAGATTTAG-GGTATAAGATTG
* *
24975401 GATGG-TGGCTCTAATCTACCCTTATGGA
63 GATGGATGGCTTTAATCTACCCTTTTGGA
* * * * * * * *
24975429 TTTAGGGTATAAGA-TGGATGTGATGGCTTTAATCCATCCCTCTTGATTT-GACGTATAAGACTA
1 TTTAGGGTATAAGATTGGATG-G-TTGCTTCAATCTACCCCTCTAGATTTAG-GGTATAAGATTG
* * **
24975492 GATGG-TAGCTTTAATCT-GCCTCTCAGGA
63 GATGGATGGCTTTAATCTACCCT-TTTGGA
* * * * * ** * *
24975520 CTTGGGGTATAAGACTGGATGGTAGCTTCAATCTGCCTTTTTAGATTT-GGTGTATAAGATTGGT
1 TTTAGGGTATAAGATTGGATGGTTGCTTCAATCTACCCCTCTAGATTTAGG-GTATAAGATTGGA
* * * *
24975584 TGTAATGGCTTCAATCTGCCCTTCTGGA
65 TG-GATGGCTTTAATCTACCCTTTTGGA
* *
24975612 TTTGGGGTATAAGACTGGAT
1 TTTAGGGTATAAGATTGGAT
24975632 ACAGTTATGT
Statistics
Matches: 386, Mismatches: 75, Indels: 33
0.78 0.15 0.07
Matches are distributed among these distances:
90 73 0.19
91 76 0.20
92 221 0.57
93 14 0.04
94 2 0.01
ACGTcount: A:0.23, C:0.13, G:0.25, T:0.39
Consensus pattern (91 bp):
TTTAGGGTATAAGATTGGATGGTTGCTTCAATCTACCCCTCTAGATTTAGGGTATAAGATTGGAT
GGATGGCTTTAATCTACCCTTTTGGA
Found at i:24990778 original size:17 final size:17
Alignment explanation
Indices: 24990756--24990794 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
24990746 CTCCACCTTG
* *
24990756 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACGA
24990773 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
24990790 ACAAG
1 ACAAG
24990795 TTCTCCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:24997706 original size:21 final size:23
Alignment explanation
Indices: 24997672--24997720 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
24997662 ATAAAAATGG
*
24997672 ATTTTTGTAATTTTGTGTTTT-T
1 ATTTTTGTAATTTTGGGTTTTCT
*
24997694 ATTTTT-TATTTTTGGGTTTTCT
1 ATTTTTGTAATTTTGGGTTTTCT
24997716 ATTTT
1 ATTTT
24997721 GTTTGGGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.12, C:0.02, G:0.12, T:0.73
Consensus pattern (23 bp):
ATTTTTGTAATTTTGGGTTTTCT
Found at i:24997727 original size:18 final size:18
Alignment explanation
Indices: 24997704--24997744 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
24997694 ATTTTTTATT
*
24997704 TTTGGGTTTTCTATTTTG
1 TTTGGGTCTTCTATTTTG
24997722 TTTGGGTCTTCTATTTTG
1 TTTGGGTCTTCTATTTTG
24997740 TTTGG
1 TTTGG
24997745 TACAAGTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.05, C:0.07, G:0.24, T:0.63
Consensus pattern (18 bp):
TTTGGGTCTTCTATTTTG
Found at i:25019159 original size:12 final size:12
Alignment explanation
Indices: 25019144--25019168 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25019134 CATTTTTTAG
25019144 TCTCTTTTTATA
1 TCTCTTTTTATA
25019156 TCTCTTTTTATA
1 TCTCTTTTTATA
25019168 T
1 T
25019169 TTAATTCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (12 bp):
TCTCTTTTTATA
Found at i:25020531 original size:98 final size:98
Alignment explanation
Indices: 25020411--25020879 Score: 495
Period size: 98 Copynumber: 4.8 Consensus size: 98
25020401 TTAGGGTATA
* * * * * ** * *
25020411 AGATTCACTATTTCAACTTCAATCTTTCCCATCACATCTCTAAGGTGTAAGGTTCACCGTTAATG
1 AGATTCACTGTTGCAGCTTCAATCTTTCCCATCACGTCTCTGAGGTACAAGGTTCACCATTAAGG
*
25020476 CTTCAACCTTTCCTTCCATAT-TTCCATGGTACC
66 CTTCAACCTTTCCCTCCATATCTT-CATGGTACC
* * * *
25020509 AGATTCACTGTTACAGCTTCAATATTTCTCAT-A--TCTCTGAGGTACAAGGTTTACCATTACA-
1 AGATTCACTGTTGCAGCTTCAATCTTTCCCATCACGTCTCTGAGGTACAAGGTTCACCATTA-AG
25020570 GCTTCAACCTTTCCCTCCATATCTTCATGGTACC
65 GCTTCAACCTTTCCCTCCATATCTTCATGGTACC
* * * * * **
25020604 AAATTTACCGTTGCTGCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCACCATTGTGG
1 AGATTCACTGTTGCAGCTTCAATCTTTCCCATCACGTCTCTGAGGTACAAGGTTCACCATTAAGG
25020669 CTTCAACCTTTCCCTCCATATC-TCTATGGTACC
66 CTTCAACCTTTCCCTCCATATCTTC-ATGGTACC
* * * * * **
25020702 AGATTC-GTCGTTGCGGCTTCAATATTTCCTATCACGTCTCTGAGGTACAAGGTTCGCCATTGCG
1 AGATTCACT-GTTGCAGCTTCAATCTTTCCCATCACGTCTCTGAGGTACAAGGTTCACCATTAAG
*
25020766 GCTTCAACCTTTCCCTCCATATCTTCATGGTA-T
65 GCTTCAACCTTTCCCTCCATATCTTCATGGTACC
* * * * * * * **
25020799 AGGATTCGCTATTGCGGCTTCAATCTTTCTCATCATGTCTTTGAGGTGCAAGGTTCGTCATTAAG
1 A-GATTCACTGTTGCAGCTTCAATCTTTCCCATCACGTCTCTGAGGTACAAGGTTCACCATTAAG
25020864 GCTTCAACCTTTCCCT
65 GCTTCAACCTTTCCCT
25020880 TCAAACTTGT
Statistics
Matches: 316, Mismatches: 44, Indels: 22
0.83 0.12 0.06
Matches are distributed among these distances:
95 76 0.24
96 4 0.01
97 4 0.01
98 229 0.72
99 3 0.01
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (98 bp):
AGATTCACTGTTGCAGCTTCAATCTTTCCCATCACGTCTCTGAGGTACAAGGTTCACCATTAAGG
CTTCAACCTTTCCCTCCATATCTTCATGGTACC
Found at i:25020720 original size:49 final size:50
Alignment explanation
Indices: 25020475--25020879 Score: 219
Period size: 49 Copynumber: 8.3 Consensus size: 50
25020465 CACCGTTAAT
* * * * ** * *
25020475 GCTTCAACCTTTCCTTCCATATTTC-CATGGTACCAGATTCACTGTTACA
1 GCTTCAACCTTTCCCTCCATATCTCTCATGGTACAAGATTCGCCATTGCG
** * * ** * *
25020524 GCTTCAATATTT--CT-CATATCTCTGA-GGTACAAGGTTTACCATTACA
1 GCTTCAACCTTTCCCTCCATATCTCTCATGGTACAAGATTCGCCATTGCG
** * *
25020570 GCTTCAACCTTTCCCTCCATATCT-TCATGGTACCAA-ATTTACCGTTGCT
1 GCTTCAACCTTTCCCTCCATATCTCTCATGGTA-CAAGATTCGCCATTGCG
* ** * * * *
25020619 GCTTCAATCTTTCCCAT-CACGTCTCT-AAGGTACAAGGTTCACCATTGTG
1 GCTTCAACCTTTCCC-TCCATATCTCTCATGGTACAAGATTCGCCATTGCG
* * *
25020668 GCTTCAACCTTTCCCTCCATATCTCT-ATGGTACCAGATTCGTCGTTGCG
1 GCTTCAACCTTTCCCTCCATATCTCTCATGGTACAAGATTCGCCATTGCG
** * ** * *
25020717 GCTTCAATATTT-CCTATCACGTCTCTGA-GGTACAAGGTTCGCCATTGCG
1 GCTTCAACCTTTCCCT-CCATATCTCTCATGGTACAAGATTCGCCATTGCG
* * *
25020766 GCTTCAACCTTTCCCTCCATATCT-TCATGGTATAGGATTCGCTATTGCG
1 GCTTCAACCTTTCCCTCCATATCTCTCATGGTACAAGATTCGCCATTGCG
* * * * * * * * **
25020815 GCTTCAATCTTTCTCAT-CATGTCTTTGA-GGTGCAAGGTTCGTCATTAAG
1 GCTTCAACCTTTC-CCTCCATATCTCTCATGGTACAAGATTCGCCATTGCG
25020864 GCTTCAACCTTTCCCT
1 GCTTCAACCTTTCCCT
25020880 TCAAACTTGT
Statistics
Matches: 271, Mismatches: 69, Indels: 33
0.73 0.18 0.09
Matches are distributed among these distances:
46 33 0.12
47 2 0.01
48 15 0.06
49 208 0.77
50 13 0.05
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (50 bp):
GCTTCAACCTTTCCCTCCATATCTCTCATGGTACAAGATTCGCCATTGCG
Found at i:25020853 original size:196 final size:193
Alignment explanation
Indices: 25020427--25020879 Score: 554
Period size: 196 Copynumber: 2.3 Consensus size: 193
25020417 ACTATTTCAA
* * * *
25020427 CTTCAATCTTTCCCATCACATCTCTAAGGTGTAAGGTTCACCGTTAAT-GCTTCAACCTTTCCTT
1 CTTCAATCTTTCCCATCACGTCTCTAAGGTGCAAGGTTCACCATT-ATGGCTTCAACCTTTCCCT
*
25020491 CCATATTTCCATGGTACCAGATTCACTGTTACAGCTTCAATATTTCTCATATCTCTGAGGTACAA
65 CCATATCTCCATGGTACCAGATTCACTGTTACAGCTTCAATATTTCTCATATCTCTGAGGTACAA
* * * *
25020556 GGTTTACCATTACAGCTTCAACCTTTCCCTCCATATCTTCATGGTACCAAATTTACCGTTGCTG
130 GGTTCACCATTACAGCTTCAACCTTTCCCTCCATATCTTCATGGTACCAAATTCACCATTGCGG
* *
25020620 CTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCACCATTGTGGCTTCAACCTTTCCCTC
1 CTTCAATCTTTCCCATCACGTCTCTAAGGTGCAAGGTTCACCATTATGGCTTCAACCTTTCCCTC
* * * *
25020685 CATATCTCTATGGTACCAGATTC-GTCGTTGCGGCTTCAATATTTC-CTATCACGTCTCTGAGGT
66 CATATCTCCATGGTACCAGATTCACT-GTTACAGCTTCAATATTTCTC-AT-A--TCTCTGAGGT
* * * * * * *
25020748 ACAAGGTTCGCCATTGCGGCTTCAACCTTTCCCTCCATATCTTCATGGTA-TAGGATTCGCTATT
126 ACAAGGTTCACCATTACAGCTTCAACCTTTCCCTCCATATCTTCATGGTACCA-AATTCACCATT
25020812 GCGG
190 GCGG
* * * * ** *
25020816 CTTCAATCTTTCTCATCATGTCTTTGAGGTGCAAGGTTCGTCATTAAGGCTTCAACCTTTCCCT
1 CTTCAATCTTTCCCATCACGTCTCTAAGGTGCAAGGTTCACCATTATGGCTTCAACCTTTCCCT
25020880 TCAAACTTGT
Statistics
Matches: 222, Mismatches: 31, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
192 3 0.01
193 97 0.44
194 1 0.00
195 1 0.00
196 120 0.54
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (193 bp):
CTTCAATCTTTCCCATCACGTCTCTAAGGTGCAAGGTTCACCATTATGGCTTCAACCTTTCCCTC
CATATCTCCATGGTACCAGATTCACTGTTACAGCTTCAATATTTCTCATATCTCTGAGGTACAAG
GTTCACCATTACAGCTTCAACCTTTCCCTCCATATCTTCATGGTACCAAATTCACCATTGCGG
Found at i:25031968 original size:24 final size:24
Alignment explanation
Indices: 25031920--25031966 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
25031910 AAGAGTTAGT
25031920 TTGTCAACGCAAATATAAAATAAA
1 TTGTCAACGCAAATATAAAATAAA
*
25031944 TTGTCAGA-GCAAAT-TAAGATAAA
1 TTGTCA-ACGCAAATATAAAATAAA
25031967 ATGAATAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 12 0.57
25 1 0.05
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.26
Consensus pattern (24 bp):
TTGTCAACGCAAATATAAAATAAA
Found at i:25034104 original size:17 final size:17
Alignment explanation
Indices: 25034079--25034142 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
25034069 TACAAATAAA
*
25034079 AATGGAAATGCAACTAC
1 AATGAAAATGCAACTAC
25034096 AATGAAAATG-AACTAAC
1 AATGAAAATGCAACT-AC
* *
25034113 AAAGAAAATGCAACGAC
1 AATGAAAATGCAACTAC
25034130 AACT-AAAATGCAA
1 AA-TGAAAATGCAA
25034143 TGAAAATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 4 0.10
17 33 0.82
18 3 0.08
ACGTcount: A:0.56, C:0.16, G:0.14, T:0.14
Consensus pattern (17 bp):
AATGAAAATGCAACTAC
Found at i:25042221 original size:24 final size:24
Alignment explanation
Indices: 25042173--25042219 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
25042163 AAGAGTTAGT
25042173 TTGTCAACGCAAATATAAAATAAA
1 TTGTCAACGCAAATATAAAATAAA
*
25042197 TTGTCAGA-GCAAAT-TAAGATAAA
1 TTGTCA-ACGCAAATATAAAATAAA
25042220 ATGAATAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 12 0.57
25 1 0.05
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.26
Consensus pattern (24 bp):
TTGTCAACGCAAATATAAAATAAA
Found at i:25044468 original size:18 final size:17
Alignment explanation
Indices: 25044433--25044466 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
25044423 AAACATTTGT
25044433 GGTAAAAAAAATTGAAA
1 GGTAAAAAAAATTGAAA
25044450 GGTAAAAAGAAA-TGAAA
1 GGTAAAAA-AAATTGAAA
25044467 AGAACCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.15
Consensus pattern (17 bp):
GGTAAAAAAAATTGAAA
Found at i:25055802 original size:93 final size:91
Alignment explanation
Indices: 25055705--25056029 Score: 289
Period size: 93 Copynumber: 3.4 Consensus size: 91
25055695 CAACGAAGCA
* * *
25055705 AATCTCAATGTCCTTGTGGTTACAGTGGAGTGGAGTGAAGCATCAGATCCTATATCTCTAAATTT
1 AATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGAGAAGCATCAGATCCTATATC-CT-AATTT
*
25055770 ATAGTAGATCGAATCAAAATGAGTAACG
64 ATAGTAGATCGGATCAAAATGAGTAACG
* * *
25055798 AATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGAGAAGTTACAACACCAAATCCTATACCCCT
1 AATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGAGAAG------CATCAGATCCTATA-TCCT
* * * * * *
25055863 -ATGTTGTAGTAGGTCGGATTAAAAT-AATGAGG
59 AAT-TTATAGTAGATCGGATCAAAATGAGTAACG
* * * *
25055895 CAGATCTCAACGT-ATCTGAGGTTACAGTAGAGTGGAGTA-AAGCATCAGATCCTATATCCTTGA
1 -A-ATCTCAATGTCCT-TGAGGTTACAGTGGAATGGAG-AGAAGCATCAGATCCTATATCC-T-A
* *
25055958 ATTTACAGTGGATCGGATCAAAATGAGTAACG
60 ATTTATAGTAGATCGGATCAAAATGAGTAACG
* *
25055990 GATCTCAATGTTCTTGAGGTTACAGTGGAATGGAGAGAAG
1 AATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGAGAAG
25056030 TTACAATACC
Statistics
Matches: 181, Mismatches: 33, Indels: 36
0.72 0.13 0.14
Matches are distributed among these distances:
92 3 0.02
93 81 0.45
94 18 0.10
95 6 0.03
97 6 0.03
98 20 0.11
99 45 0.25
100 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (91 bp):
AATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGAGAAGCATCAGATCCTATATCCTAATTTAT
AGTAGATCGGATCAAAATGAGTAACG
Found at i:25064156 original size:19 final size:19
Alignment explanation
Indices: 25064132--25064203 Score: 135
Period size: 19 Copynumber: 3.8 Consensus size: 19
25064122 ATATTAGCTC
25064132 AGACAGCTCACACATTTCT
1 AGACAGCTCACACATTTCT
25064151 AGACAGCTCACACATTTCT
1 AGACAGCTCACACATTTCT
25064170 AGACAGCTCACACATTTCT
1 AGACAGCTCACACATTTCT
*
25064189 AGACAACTCACACAT
1 AGACAGCTCACACAT
25064204 GTTTGTTCTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.35, C:0.32, G:0.10, T:0.24
Consensus pattern (19 bp):
AGACAGCTCACACATTTCT
Found at i:25065306 original size:17 final size:17
Alignment explanation
Indices: 25065281--25065316 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
25065271 ATGCACTAAC
* *
25065281 ATTAGAATGCAATGACA
1 ATTAAAATGCAACGACA
25065298 ATTAAAATGCAACGACA
1 ATTAAAATGCAACGACA
25065315 AT
1 AT
25065317 ATTCACTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.22
Consensus pattern (17 bp):
ATTAAAATGCAACGACA
Found at i:25074056 original size:19 final size:19
Alignment explanation
Indices: 25074034--25074070 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25074024 TATACCAAAC
25074034 TGGACAGCTCATACATTTT
1 TGGACAGCTCATACATTTT
*
25074053 TGGATAGCTCATACATTT
1 TGGACAGCTCATACATTT
25074071 CTGTTCCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (19 bp):
TGGACAGCTCATACATTTT
Found at i:25076988 original size:31 final size:32
Alignment explanation
Indices: 25076925--25077079 Score: 104
Period size: 31 Copynumber: 4.8 Consensus size: 32
25076915 AGTTCACTGA
* * *
25076925 GACAGTAAACAAAGAACAGAGATAGTTCACTAG
1 GACAATAAACAAAGAATAGA-ATAGTCCACTAG
*
25076958 GACAATAAACATAGAATAGAA-AGTCCACTAG
1 GACAATAAACAAAGAATAGAATAGTCCACTAG
* * * *
25076989 GACATTAAACACAA-AATAGAACTAGTCTATTGG
1 GACAATAAACA-AAGAATAGAA-TAGTCCACTAG
* * *
25077022 GATAGTAAACACAA-AATAG-ATAGTCC-CTTGG
1 GACAATAAACA-AAGAATAGAATAGTCCAC-TAG
* *
25077053 GATAATAAAAAAAGAATAGAAATAGTC
1 GACAATAAACAAAGAATAG-AATAGTC
25077080 TATTAGGATA
Statistics
Matches: 100, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
30 2 0.02
31 48 0.48
32 3 0.03
33 47 0.47
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (32 bp):
GACAATAAACAAAGAATAGAATAGTCCACTAG
Found at i:25077031 original size:64 final size:64
Alignment explanation
Indices: 25076963--25077097 Score: 157
Period size: 64 Copynumber: 2.1 Consensus size: 64
25076953 ACTAGGACAA
* * * * * *
25076963 TAAACATAGAATAGAAAGTCCAC-TAGGACATTAAACACAA-AATAGAACTAGTCTATTGGGATA
1 TAAACACAAAATAGAAAGTCC-CTTAGGACAATAAA-AAAAGAATAGAAATAGTCTATTAGGATA
25077026 G
64 G
* * *
25077027 TAAACACAAAATAGATAGTCCCTTGGGATAATAAAAAAAGAATAGAAATAGTCTATTAGGATAG
1 TAAACACAAAATAGAAAGTCCCTTAGGACAATAAAAAAAGAATAGAAATAGTCTATTAGGATAG
25077091 TAAACAC
1 TAAACAC
25077098 GAGGTAAGTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
63 4 0.07
64 56 0.93
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.22
Consensus pattern (64 bp):
TAAACACAAAATAGAAAGTCCCTTAGGACAATAAAAAAAGAATAGAAATAGTCTATTAGGATAG
Found at i:25077033 original size:33 final size:32
Alignment explanation
Indices: 25076994--25077097 Score: 122
Period size: 33 Copynumber: 3.2 Consensus size: 32
25076984 ACTAGGACAT
25076994 TAAACACAAAATAGAACTAGTCTATTGGGATAG
1 TAAACACAAAATAGAA-TAGTCTATTGGGATAG
** *
25077027 TAAACACAAAATAG-ATAGTCCCTTGGGATAA
1 TAAACACAAAATAGAATAGTCTATTGGGATAG
* *
25077058 TAAA-AAAAGAATAGAAATAGTCTATTAGGATAG
1 TAAACACAA-AATAG-AATAGTCTATTGGGATAG
25077091 TAAACAC
1 TAAACAC
25077098 GAGGTAAGTT
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
30 3 0.05
31 22 0.38
32 1 0.02
33 31 0.53
34 1 0.02
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.23
Consensus pattern (32 bp):
TAAACACAAAATAGAATAGTCTATTGGGATAG
Found at i:25084127 original size:22 final size:22
Alignment explanation
Indices: 25084101--25084196 Score: 83
Period size: 21 Copynumber: 4.4 Consensus size: 22
25084091 TTTGGCTTAT
*
25084101 TTAGGGTTTATGGTTTTTTAAA
1 TTAGGGTTTATGGTATTTTAAA
*
25084123 TTAGGG-TTA-GTGTAATTTAAA
1 TTAGGGTTTATG-GTATTTTAAA
* *
25084144 TT-GAAGTTT-TGGTTTTTTAAA
1 TTAG-GGTTTATGGTATTTTAAA
* *
25084165 TTAAGGTTTAGGGTATTTTAAA
1 TTAGGGTTTATGGTATTTTAAA
25084187 TTATGGGTTT
1 TTA-GGGTTT
25084197 TGAAAATGGT
Statistics
Matches: 57, Mismatches: 10, Indels: 13
0.71 0.12 0.16
Matches are distributed among these distances:
20 2 0.04
21 28 0.49
22 22 0.39
23 5 0.09
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (22 bp):
TTAGGGTTTATGGTATTTTAAA
Found at i:25084157 original size:42 final size:44
Alignment explanation
Indices: 25084106--25084188 Score: 125
Period size: 43 Copynumber: 1.9 Consensus size: 44
25084096 CTTATTTAGG
*
25084106 GTTTATGGTTTTTTAAATT-AGGGTTAGTGTAATTTAAATTGAA
1 GTTTATGGTTTTTTAAATTAAGGGTTAGGGTAATTTAAATTGAA
* *
25084149 GTTT-TGGTTTTTTAAATTAAGGTTTAGGGTATTTTAAATT
1 GTTTATGGTTTTTTAAATTAAGGGTTAGGGTAATTTAAATT
25084189 ATGGGTTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 14 0.39
43 22 0.61
ACGTcount: A:0.28, C:0.00, G:0.20, T:0.52
Consensus pattern (44 bp):
GTTTATGGTTTTTTAAATTAAGGGTTAGGGTAATTTAAATTGAA
Found at i:25088132 original size:59 final size:59
Alignment explanation
Indices: 25088029--25088250 Score: 336
Period size: 59 Copynumber: 3.7 Consensus size: 59
25088019 TTGGTTCTCA
* * *
25088029 ATTAAATGAAACAATATGTCAAAACTAATGTCTACAAAAATATTCAAATGAACTTCGATGTT
1 ATTAAATGAAACAATA--T-AAAAATAATGTGTACAAAAATATTCAAATGAACTTCGATTTT
* * *
25088091 ATTAAATGAAATAATATAAAAATAATGTGTACAAAATTATTCAAATAAACTTCGATTTT
1 ATTAAATGAAACAATATAAAAATAATGTGTACAAAAATATTCAAATGAACTTCGATTTT
*
25088150 ATTAAATGAAACAATATAAAAATAATGTGTACAAAAATATTCAAATGAACTTCAATTTT
1 ATTAAATGAAACAATATAAAAATAATGTGTACAAAAATATTCAAATGAACTTCGATTTT
* *
25088209 ATTAAATGAAACAAGATAAAAATAATGTTTACAAAAATATTC
1 ATTAAATGAAACAATATAAAAATAATGTGTACAAAAATATTC
25088251 GAATTAAATT
Statistics
Matches: 148, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
59 132 0.89
60 1 0.01
62 15 0.10
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.32
Consensus pattern (59 bp):
ATTAAATGAAACAATATAAAAATAATGTGTACAAAAATATTCAAATGAACTTCGATTTT
Found at i:25090253 original size:22 final size:22
Alignment explanation
Indices: 25090204--25090250 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
25090194 ATTCACATAA
* * *
25090204 AAATTATTAAAAAATATTAATT
1 AAATTATAAAAAAATATAAAAT
25090226 AAATTATAAAAATAATATAAAAT
1 AAATTATAAAAA-AATATAAAAT
25090249 AA
1 AA
25090251 TTAAATATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATTATAAAAAAATATAAAAT
Found at i:25090624 original size:31 final size:31
Alignment explanation
Indices: 25090583--25090658 Score: 134
Period size: 31 Copynumber: 2.5 Consensus size: 31
25090573 TGACCACCAG
25090583 AACACGGGCAAAAGTGTGCCCCATGTGTGAA
1 AACACGGGCAAAAGTGTGCCCCATGTGTGAA
*
25090614 AAGACGGGCAAAAGTGTGCCCCATGTGTGAA
1 AACACGGGCAAAAGTGTGCCCCATGTGTGAA
*
25090645 AACACGGGGAAAAG
1 AACACGGGCAAAAG
25090659 CGCTTCCACA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.36, C:0.20, G:0.32, T:0.13
Consensus pattern (31 bp):
AACACGGGCAAAAGTGTGCCCCATGTGTGAA
Found at i:25092756 original size:31 final size:33
Alignment explanation
Indices: 25092697--25092768 Score: 94
Period size: 31 Copynumber: 2.2 Consensus size: 33
25092687 TTATTCATTC
** *
25092697 TTGCTTTTTCTTTTTATTGTGTATATGAATGTA
1 TTGCTTTTTCTTTTTATTGAATAGATGAATGTA
25092730 TTGCTTTTT-TTTTT-TTGAATAGATGAATGTA
1 TTGCTTTTTCTTTTTATTGAATAGATGAATGTA
*
25092761 CTGCTTTT
1 TTGCTTTT
25092769 AAAGTTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 21 0.60
32 5 0.14
33 9 0.26
ACGTcount: A:0.18, C:0.07, G:0.15, T:0.60
Consensus pattern (33 bp):
TTGCTTTTTCTTTTTATTGAATAGATGAATGTA
Found at i:25098797 original size:18 final size:18
Alignment explanation
Indices: 25098774--25098809 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
25098764 GTGACTAACG
25098774 TAATTTGAACTCAAATCA
1 TAATTTGAACTCAAATCA
25098792 TAATTTGAACTCAAATCA
1 TAATTTGAACTCAAATCA
25098810 CACTTGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (18 bp):
TAATTTGAACTCAAATCA
Found at i:25104985 original size:153 final size:156
Alignment explanation
Indices: 25104705--25105003 Score: 541
Period size: 153 Copynumber: 1.9 Consensus size: 156
25104695 TCTGTTTTAA
* *
25104705 ACCTCTGCAATTGTAAGTAGTAGAGAAAAGTTTAATAAATACTCTCTGTTTTCTCCACTGTTTTA
1 ACCTCTGCAATTGTAAGTAATAGAGAAAAGTTTAATAAATACTCTCTGTTTTCTCCACTGGTTTA
*
25104770 TTCCTTTACATTACATGTTTTCTAACTTGGTATCAAGAGCCATGTTTCTTTTCTAGTGATTATAA
66 TTCCTTTACATTACATGTTTTCTAACTTGGTATCAAGAGCCATGTTTCTTCTCTAGTGATTATAA
25104835 CTATTTTT-ATGGCAACAAATCAACT
131 CTATTTTTCATGGCAACAAATCAACT
*
25104860 ACCTCTGCAATTGTAAGTAATAGAGAAAAGTTTAATGAATACT-T-TGTTTTCTCCACTGGTTTA
1 ACCTCTGCAATTGTAAGTAATAGAGAAAAGTTTAATAAATACTCTCTGTTTTCTCCACTGGTTTA
25104923 TTCCTTTACATTACATGTTTTCTAACTTGGTATCAAGAGCCATGTTTCTTCTCTAGTGATTATAA
66 TTCCTTTACATTACATGTTTTCTAACTTGGTATCAAGAGCCATGTTTCTTCTCTAGTGATTATAA
25104988 CTATTTTTCATGGCAA
131 CTATTTTTCATGGCAA
25105004 TTGTGACTTC
Statistics
Matches: 139, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
153 90 0.65
154 8 0.06
155 41 0.29
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (156 bp):
ACCTCTGCAATTGTAAGTAATAGAGAAAAGTTTAATAAATACTCTCTGTTTTCTCCACTGGTTTA
TTCCTTTACATTACATGTTTTCTAACTTGGTATCAAGAGCCATGTTTCTTCTCTAGTGATTATAA
CTATTTTTCATGGCAACAAATCAACT
Found at i:25110231 original size:30 final size:29
Alignment explanation
Indices: 25110195--25110271 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 29
25110185 AGATAAACAT
25110195 AAATTAAATACAAATAAATAATAT-CTTTA
1 AAATTAAATACAAATAAA-AATATACTTTA
* * *
25110224 AATATTAAATCCTAATAAAAATATATTTTA
1 AA-ATTAAATACAAATAAAAATATACTTTA
*
25110254 AAATAAAATA-AAATAAAA
1 AAATTAAATACAAATAAAA
25110272 CCAAGTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.17
29 13 0.32
30 20 0.50
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (29 bp):
AAATTAAATACAAATAAAAATATACTTTA
Found at i:25112190 original size:28 final size:28
Alignment explanation
Indices: 25112159--25112215 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
25112149 CATATTTTCT
25112159 TTATATAT-TTATT-TATATATTATTAATA
1 TTATATATATTATTCTATAT-TT-TTAATA
*
25112187 TTATTTATATTATTCTATATTTTTAATA
1 TTATATATATTATTCTATATTTTTAATA
25112215 T
1 T
25112216 ATTTAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 14 0.54
29 7 0.27
30 5 0.19
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (28 bp):
TTATATATATTATTCTATATTTTTAATA
Found at i:25112200 original size:12 final size:11
Alignment explanation
Indices: 25112158--25112196 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 11
25112148 GCATATTTTC
25112158 TTTATATATTTA
1 TTTATATA-TTA
25112170 TTTATATATTA
1 TTTATATATTA
25112181 -TTA-ATATTA
1 TTTATATATTA
25112190 TTTATAT
1 TTTATAT
25112197 TATTCTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 6 0.24
10 6 0.24
11 5 0.20
12 8 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTATATATTA
Found at i:25112206 original size:30 final size:27
Alignment explanation
Indices: 25112162--25112225 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
25112152 ATTTTCTTTA
25112162 TATATTTATTTATATATTATTAATATTATT
1 TATATTTATTTATAT-TT-TTAATA-TATT
25112192 TATA-TTATTCTATATTTTTAATATATT
1 TATATTTATT-TATATTTTTAATATATT
*
25112219 TAAATTT
1 TATATTT
25112226 GGGATACTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
27 7 0.23
28 8 0.26
29 7 0.23
30 9 0.29
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (27 bp):
TATATTTATTTATATTTTTAATATATT
Found at i:25112211 original size:18 final size:17
Alignment explanation
Indices: 25112168--25112211 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
25112158 TTTATATATT
*
25112168 TATTTATATATTATTAA
1 TATTTTTATATTATTAA
*
25112185 TATTATTTATATTATTCTA
1 TATT-TTTATATTATT-AA
25112204 TATTTTTA
1 TATTTTTA
25112212 ATATATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 14 0.61
19 5 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTTTTATATTATTAA
Found at i:25114390 original size:33 final size:33
Alignment explanation
Indices: 25114314--25114390 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 33
25114304 CCTATTTACT
* * * ** *
25114314 TAAAATAAATAATTTTAGTCAAAATGAAATTAG
1 TAAAATAAACAAATTTAATCAAAACAAAATTAA
*
25114347 GAAAAT-AACAAATTTAATCAAAACAAAATTAA
1 TAAAATAAACAAATTTAATCAAAACAAAATTAA
25114379 TAAAATAAACAA
1 TAAAATAAACAA
25114391 CTTTGACTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
32 25 0.71
33 10 0.29
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.26
Consensus pattern (33 bp):
TAAAATAAACAAATTTAATCAAAACAAAATTAA
Found at i:25119993 original size:24 final size:24
Alignment explanation
Indices: 25119941--25119993 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
25119931 CTCAAATGCA
* *
25119941 TCCTTCACCCCCAATGTATCACCC
1 TCCTCCACCACCAATGTATCACCC
*
25119965 ACCTCCACCACCAATGTATC-CTCC
1 TCCTCCACCACCAATGTATCAC-CC
25119989 TCCTC
1 TCCTC
25119994 AAATATATCC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.21, C:0.51, G:0.04, T:0.25
Consensus pattern (24 bp):
TCCTCCACCACCAATGTATCACCC
Found at i:25120919 original size:18 final size:17
Alignment explanation
Indices: 25120896--25120930 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25120886 AACTTACTGC
25120896 TACTGATGGTCACTCTTT
1 TACTGATGGTCAC-CTTT
*
25120914 TACTGATGTTCACCTTT
1 TACTGATGGTCACCTTT
25120931 ATCGGCAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.46
Consensus pattern (17 bp):
TACTGATGGTCACCTTT
Found at i:25122096 original size:23 final size:23
Alignment explanation
Indices: 25122051--25122096 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
25122041 AATATTTTTA
* * * *
25122051 TTATTTTTCTATTTTTTACATAT
1 TTATTTTTATAATTTTAAAATAT
25122074 TTATTTTTATAATTTTAAAATAT
1 TTATTTTTATAATTTTAAAATAT
25122097 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTTTTATAATTTTAAAATAT
Found at i:25130294 original size:24 final size:24
Alignment explanation
Indices: 25130267--25130312 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
25130257 ATTCTTAGGT
*
25130267 AAAATAAATTATGCTAATAAATGC
1 AAAATAAATTATACTAATAAATGC
*
25130291 AAAATATATTATACTAATAAAT
1 AAAATAAATTATACTAATAAAT
25130313 ACTAAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAATAAATTATACTAATAAATGC
Found at i:25130319 original size:24 final size:24
Alignment explanation
Indices: 25130267--25130319 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
25130257 ATTCTTAGGT
* *
25130267 AAAATAAATTATGCTAATAAATGC
1 AAAATAAATTATACTAATAAATAC
*
25130291 AAAATATATTATACTAATAAATAC
1 AAAATAAATTATACTAATAAATAC
*
25130315 TAAAT
1 AAAAT
25130320 CTTCTGGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.32
Consensus pattern (24 bp):
AAAATAAATTATACTAATAAATAC
Found at i:25134252 original size:84 final size:84
Alignment explanation
Indices: 25134151--25134331 Score: 209
Period size: 84 Copynumber: 2.2 Consensus size: 84
25134141 TAACATACGT
** ** **
25134151 AGTGCATCATCGAATATACTAAAGCAATCATGTTCGCACATAAGTGCATCATCGAATGTACCGAA
1 AGTGCATCATCGAATATACTAAAGCAATCATAATAACACATAAGTGCATCATCGAATAAACCGAA
**
25134216 ACAAATATACTGGCATGTA
66 ACAAATATACTGGCACATA
* * * * * * *
25134235 CGTGCATCATTGGATATACTGAAGCAATTATAATAACACATAAGTGTATCATCGGATAAACCGAA
1 AGTGCATCATCGAATATACTAAAGCAATCATAATAACACATAAGTGCATCATCGAATAAACCGAA
* *
25134300 GCAAATATATTGGCACATA
66 ACAAATATACTGGCACATA
25134319 AGTGCATCATCGA
1 AGTGCATCATCGA
25134332 TTAAACCAAA
Statistics
Matches: 77, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (84 bp):
AGTGCATCATCGAATATACTAAAGCAATCATAATAACACATAAGTGCATCATCGAATAAACCGAA
ACAAATATACTGGCACATA
Found at i:25134301 original size:42 final size:42
Alignment explanation
Indices: 25134112--25134338 Score: 127
Period size: 42 Copynumber: 5.4 Consensus size: 42
25134102 CACGGAGGTA
* * * *
25134112 CATCATCGGATGAACTGAAGCAATTATAATAACATACGT-AGTG
1 CATCATCGGATAAACCGAAGCAAATATAATAAC--ACATAAGTG
* * ** ** **
25134155 CATCATCGAATATACTAAAGC-AATCATGTTCGCACATAAGTG
1 CATCATCGGATAAACCGAAGCAAAT-ATAATAACACATAAGTG
* ** * * ** ** *
25134197 CATCATCGAATGTACCGAAACAAATATACTGGCATGTACGTG
1 CATCATCGGATAAACCGAAGCAAATATAATAACACATAAGTG
* * * *
25134239 CATCATTGGATATACTGAAGCAATTATAATAACACATAAGTG
1 CATCATCGGATAAACCGAAGCAAATATAATAACACATAAGTG
* * **
25134281 TATCATCGGATAAACCGAAGCAAATATATTGGCACATAAGTG
1 CATCATCGGATAAACCGAAGCAAATATAATAACACATAAGTG
25134323 CATCATC-GATTAAACC
1 CATCATCGGA-TAAACC
25134339 AAAGTATAAC
Statistics
Matches: 139, Mismatches: 41, Indels: 9
0.74 0.22 0.05
Matches are distributed among these distances:
41 5 0.04
42 110 0.79
43 24 0.17
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (42 bp):
CATCATCGGATAAACCGAAGCAAATATAATAACACATAAGTG
Found at i:25148074 original size:13 final size:14
Alignment explanation
Indices: 25148055--25148094 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
25148045 AGCAAACATT
25148055 TTTTTCTTCTTTTC
1 TTTTTCTTCTTTTC
25148069 -TTTTC-TCTTTTC
1 TTTTTCTTCTTTTC
25148081 TTTTTCTTTCTTTT
1 TTTTTC-TTCTTTT
25148095 TCTCATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 7 0.30
13 10 0.43
15 6 0.26
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTCTTCTTTTC
Found at i:25148087 original size:23 final size:24
Alignment explanation
Indices: 25148051--25148111 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 24
25148041 TTATAGCAAA
25148051 CATTTT-TTTCTTCTTT-TCTTTTCT
1 CATTTTCTTT-TTCTTTCT-TTTTCT
25148075 C-TTTTCTTTTTCTTTCTTTTTCT
1 CATTTTCTTTTTCTTTCTTTTTCT
25148098 CATTTTCCTTTTTC
1 CATTTT-CTTTTTC
25148112 AAGTGACTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
23 17 0.52
24 9 0.27
25 7 0.21
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (24 bp):
CATTTTCTTTTTCTTTCTTTTTCT
Found at i:25148109 original size:30 final size:29
Alignment explanation
Indices: 25148053--25148109 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 29
25148043 ATAGCAAACA
25148053 TTTTTTTCTTCTTTTCTTTTCTCTTTTCT
1 TTTTTTTCTTCTTTTCTTTTCTCTTTTCT
25148082 TTTTCTTTCTT-TTTCTCATTTTC-CTTTT
1 TTTT-TTTCTTCTTT-TC-TTTTCTCTTTT
25148110 TCAAGTGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
29 7 0.28
30 13 0.52
31 5 0.20
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (29 bp):
TTTTTTTCTTCTTTTCTTTTCTCTTTTCT
Found at i:25154487 original size:12 final size:13
Alignment explanation
Indices: 25154470--25154502 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
25154460 TTTAGGGTGT
25154470 CCAAATTACAAA-
1 CCAAATTACAAAC
25154482 CCAAATTACAAAC
1 CCAAATTACAAAC
25154495 CCAAATTA
1 CCAAATTA
25154503 AACCCAATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (13 bp):
CCAAATTACAAAC
Found at i:25155320 original size:22 final size:20
Alignment explanation
Indices: 25155294--25155333 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
25155284 AATAAAAAAC
25155294 AAGACATTATTTTAGATCTGTA
1 AAGACATT-TTTT-GATCTGTA
*
25155316 AAGACCTTTTTTGATCTG
1 AAGACATTTTTTGATCTG
25155334 AGTTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 4 0.24
22 7 0.41
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (20 bp):
AAGACATTTTTTGATCTGTA
Found at i:25168128 original size:38 final size:38
Alignment explanation
Indices: 25168084--25168684 Score: 382
Period size: 38 Copynumber: 15.6 Consensus size: 38
25168074 CCGATCATGG
25168084 GGCAGATTGAAGCATCCAATCTCTTACCTTAATCAGAA
1 GGCAGATTGAAGCATCCAATCTCTTACCTTAATCAGAA
* * * * **
25168122 GACAGATTAAAGACA-CATCGATCTTTTACCTCGATCATG-A
1 GGCAGATTGAAG-CATC--CAATCTCTTACCTTAATCA-GAA
* * *
25168162 GGCAAATTGAAGAATCCAATCTCTTACCTTAATTAGAA
1 GGCAGATTGAAGCATCCAATCTCTTACCTTAATCAGAA
* * *** *
25168200 GGCAGATTGAAGACATGCAGTCTCTTACCCCGATCATG-G
1 GGCAGATTGAAG-CATCCAATCTCTTACCTTAATCA-GAA
* * *
25168239 GGTAGATTGAAGCATCCAATCTTTTACCTTAATCAAAA
1 GGCAGATTGAAGCATCCAATCTCTTACCTTAATCAGAA
* * *** *
25168277 AGCAGATTGAAG-ATGCAGCAATCTTTTACCCCGATCTTG-A
1 GGCAGATTGAAGCAT-C--CAATCTCTTACCTTAATC-AGAA
* *
25168317 GGCAGATTGAAGCATCCAATCTTTTACCTTAATCAAAA
1 GGCAGATTGAAGCATCCAATCTCTTACCTTAATCAGAA
** * * *** *
25168355 GATAGATTGAAGACACACCAATCTTTTACCCCGATCATG-G
1 GGCAGATTGAAG-CA-TCCAATCTCTTACCTTAATCA-GAA
*
25168395 GGCAGATTGAAGCATCCAATCTCTTACCTTAATTAGAA
1 GGCAGATTGAAGCATCCAATCTCTTACCTTAATCAGAA
* ***
25168433 GGCAGATTGAAGACA-CATCGATCTCTTACCCCGATCATG--
1 GGCAGATTGAAG-CATC--CAATCTCTTACCTTAATCA-GAA
*
25168472 GGACAGATTGAAGAATCCAATCTCTTACCTTAATCAGAA
1 GG-CAGATTGAAGCATCCAATCTCTTACCTTAATCAGAA
* * * * *
25168511 GGCAGATTGAAGACGTGCAGTCTCTTACCCTGATCATG--
1 GGCAGATTGAAG-CATCCAATCTCTTACCTTAATCA-GAA
* * * *
25168549 GGTAGATTGAAGAATTCAATCTCTTACCTTAATTAGAA
1 GGCAGATTGAAGCATCCAATCTCTTACCTTAATCAGAA
** *
25168587 GGCAGATTGAAGACAT-CAATCTCTTACCTCGATTATG-A
1 GGCAGATTGAAG-CATCCAATCTCTTACCTTAATCA-GAA
* * * * *
25168625 GGCAAATTAAAGCATCCAATCTTTTACCCTAATCAGAG
1 GGCAGATTGAAGCATCCAATCTCTTACCTTAATCAGAA
*
25168663 GGCAGATTGAAGACATACAATC
1 GGCAGATTGAAG-CATCCAATC
25168685 GTGGGGCAAA
Statistics
Matches: 425, Mismatches: 102, Indels: 71
0.71 0.17 0.12
Matches are distributed among these distances:
36 1 0.00
37 25 0.06
38 218 0.51
39 69 0.16
40 108 0.25
41 4 0.01
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (38 bp):
GGCAGATTGAAGCATCCAATCTCTTACCTTAATCAGAA
Found at i:25168206 original size:78 final size:78
Alignment explanation
Indices: 25168064--25168677 Score: 717
Period size: 78 Copynumber: 7.9 Consensus size: 78
25168054 AGTAAAGGCA
* * *
25168064 ATCTCATACCCCGATCATGGGGCAGATTGAAGCATCCAATCTCTTACCTTAATCAGAAGACAGAT
1 ATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCTTAATCAGAAGGCAGAT
*
25168129 TAAAGACACATCG
66 TGAAGACACATCG
* * * * *
25168142 ATCTTTTACCTCGATCATGAGGCAAATTGAAGAATCCAATCTCTTACCTTAATTAGAAGGCAGAT
1 ATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCTTAATCAGAAGGCAGAT
25168207 TGAAG--ACAT-G
66 TGAAGACACATCG
* * * * *
25168217 CAGTCTCTTACCCCGATCATGGGGTAGATTGAAGCATCCAATCTTTTACCTTAATCAAAAAGCAG
1 -A-TCTCTTACCCCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCTTAATCAGAAGGCAG
** * *
25168282 ATTGAAGATGCAGCA
64 ATTGAAGACACATCG
* * * * **
25168297 ATCTTTTACCCCGATCTTGAGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAAAAGATAGAT
1 ATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCTTAATCAGAAGGCAGAT
* *
25168362 TGAAGACACACCA
66 TGAAGACACATCG
* * *
25168375 ATCTTTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTCTTACCTTAATTAGAAGGCAGAT
1 ATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCTTAATCAGAAGGCAGAT
25168440 TGAAGACACATCG
66 TGAAGACACATCG
*
25168453 ATCTCTTACCCCGATCATG-GGACAGATTGAAGAATCCAATCTCTTACCTTAATCAGAAGGCAGA
1 ATCTCTTACCCCGATCATGAGG-CAGATTGAAGCATCCAATCTCTTACCTTAATCAGAAGGCAGA
*
25168517 TTGAAG--ACGT-G
65 TTGAAGACACATCG
* * * * *
25168528 CAGTCTCTTACCCTGATCATG-GGTAGATTGAAGAATTCAATCTCTTACCTTAATTAGAAGGCAG
1 -A-TCTCTTACCCCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCTTAATCAGAAGGCAG
*
25168592 ATTGAAG--ACATCA
64 ATTGAAGACACATCG
* * * * * * *
25168605 ATCTCTTACCTCGATTATGAGGCAAATTAAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGAT
1 ATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCTTAATCAGAAGGCAGAT
25168670 TGAAGACA
66 TGAAGACA
25168678 TACAATCGTG
Statistics
Matches: 461, Mismatches: 63, Indels: 24
0.84 0.11 0.04
Matches are distributed among these distances:
75 17 0.04
76 99 0.21
77 80 0.17
78 262 0.57
79 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (78 bp):
ATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCTTAATCAGAAGGCAGAT
TGAAGACACATCG
Found at i:25172532 original size:16 final size:16
Alignment explanation
Indices: 25172522--25172552 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25172512 TTTAATTATT
25172522 TTTATATTTAATTTGC
1 TTTATATTTAATTTGC
*
25172538 TTTATATTTACTTTG
1 TTTATATTTAATTTG
25172553 TTTTTTGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTATATTTAATTTGC
Found at i:25174452 original size:6 final size:6
Alignment explanation
Indices: 25174434--25174467 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
25174424 CTTTTGACTT
25174434 CCCACC CCC-CC CCCACC CCCACC CCCACC CCCAC
1 CCCACC CCCACC CCCACC CCCACC CCCACC CCCAC
25174468 AACAATCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.15, C:0.85, G:0.00, T:0.00
Consensus pattern (6 bp):
CCCACC
Found at i:25174497 original size:3 final size:3
Alignment explanation
Indices: 25174489--25174524 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
25174479 GTAGTTCCTT
25174489 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
25174525 CCTCAACTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:25177956 original size:27 final size:27
Alignment explanation
Indices: 25177906--25177958 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
25177896 TGTCCACTTC
* * *
25177906 TCCCAGATTGGTACCTAAAGTTTTTTA
1 TCCCAGATTAGTACCCAAACTTTTTTA
*
25177933 TCCCAGATTAGTACCCGAACTTTTTT
1 TCCCAGATTAGTACCCAAACTTTTTT
25177959 TTCGTCCATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.40
Consensus pattern (27 bp):
TCCCAGATTAGTACCCAAACTTTTTTA
Found at i:25178552 original size:32 final size:32
Alignment explanation
Indices: 25178516--25178578 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
25178506 TTGTTGAGGT
*
25178516 TTTTTTATTTTTTGGGTTTTGACTCTGTTTTG
1 TTTTTTATTTTATGGGTTTTGACTCTGTTTTG
25178548 TTTTTTATTTTATGGGTTTTGACTCTGTTTT
1 TTTTTTATTTTATGGGTTTTGACTCTGTTTT
25178579 ATTTCGTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.08, C:0.06, G:0.17, T:0.68
Consensus pattern (32 bp):
TTTTTTATTTTATGGGTTTTGACTCTGTTTTG
Found at i:25178779 original size:9 final size:9
Alignment explanation
Indices: 25178750--25178964 Score: 78
Period size: 9 Copynumber: 22.9 Consensus size: 9
25178740 TTACTATTTT
25178750 TGTATG-TA
1 TGTATGTTA
*
25178758 TGTATAATTA
1 TGTAT-GTTA
25178768 TGTATGTTA
1 TGTATGTTA
25178777 TGTATTGTTA
1 TGTA-TGTTA
25178787 TGTATGTTA
1 TGTATGTTA
25178796 TTGTCCATACTGTTA
1 -TG----TA-TGTTA
25178811 TGTATGTTA
1 TGTATGTTA
25178820 TTGTCCATACTGTTA
1 -TG----TA-TGTTA
25178835 TGTATGTTA
1 TGTATGTTA
*
25178844 TGTATATTA
1 TGTATGTTA
25178853 T-TATG-TA
1 TGTATGTTA
25178860 TGTTATGTTCA
1 TG-TATGTT-A
25178871 CTGTTATGTT-
1 -TG-TATGTTA
*
25178881 TGTATATT-
1 TGTATGTTA
25178889 TGTATG-TA
1 TGTATGTTA
25178897 TGATATGTATA
1 TG-TATGT-TA
*
25178908 T-TAAG-T-
1 TGTATGTTA
25178914 T-TAGTGTTA
1 TGTA-TGTTA
*
25178923 TGTTTGTATA
1 TGTATGT-TA
25178933 T-T-TG-TA
1 TGTATGTTA
25178939 TGTATGTTA
1 TGTATGTTA
* *
25178948 TGTATATTT
1 TGTATGTTA
25178957 TGTATGTT
1 TGTATGTT
25178965 CTGTTTACTG
Statistics
Matches: 163, Mismatches: 12, Indels: 63
0.68 0.05 0.26
Matches are distributed among these distances:
6 6 0.04
7 7 0.04
8 25 0.15
9 65 0.40
10 29 0.18
11 4 0.02
12 9 0.06
14 8 0.05
15 10 0.06
ACGTcount: A:0.23, C:0.04, G:0.18, T:0.55
Consensus pattern (9 bp):
TGTATGTTA
Found at i:25178810 original size:24 final size:24
Alignment explanation
Indices: 25178782--25178865 Score: 129
Period size: 24 Copynumber: 3.6 Consensus size: 24
25178772 TGTTATGTAT
25178782 TGTTATGTATGTTATTGTCCATAC
1 TGTTATGTATGTTATTGTCCATAC
25178806 TGTTATGTATGTTATTGTCCATAC
1 TGTTATGTATGTTATTGTCCATAC
*
25178830 TGTTATGTATGTTA-TGT--ATAT
1 TGTTATGTATGTTATTGTCCATAC
*
25178851 TATTATGTATGTTAT
1 TGTTATGTATGTTAT
25178866 GTTCACTGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
21 16 0.28
23 3 0.05
24 38 0.67
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.54
Consensus pattern (24 bp):
TGTTATGTATGTTATTGTCCATAC
Found at i:25178903 original size:25 final size:25
Alignment explanation
Indices: 25178872--25178950 Score: 80
Period size: 25 Copynumber: 3.3 Consensus size: 25
25178862 TTATGTTCAC
25178872 TGTTATGTTTGTATATTTGTATGTA
1 TGTTATGTTTGTATATTTGTATGTA
* *
25178897 TG--A--TATGTATATTAAGT-T-TA
1 TGTTATGTTTGTATATT-TGTATGTA
25178917 GTGTTATGTTTGTATATTTGTATGTA
1 -TGTTATGTTTGTATATTTGTATGTA
25178943 TGTTATGT
1 TGTTATGT
25178951 ATATTTTGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 16
0.68 0.06 0.26
Matches are distributed among these distances:
20 2 0.05
21 12 0.29
22 2 0.05
23 2 0.05
24 2 0.05
25 20 0.48
26 2 0.05
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (25 bp):
TGTTATGTTTGTATATTTGTATGTA
Found at i:25178905 original size:21 final size:20
Alignment explanation
Indices: 25178875--25178963 Score: 79
Period size: 21 Copynumber: 4.0 Consensus size: 20
25178865 TGTTCACTGT
*
25178875 TATGTTTGTATATTTGTATG
1 TATGTATGTATATTTGTATG
*
25178895 TATGATATGTATATTAAGTTTAGTG
1 TATG-TATGTATATT---TGTA-TG
*
25178920 TTATGTTTGTATATTTGTATG
1 -TATGTATGTATATTTGTATG
25178941 TATGTTATGTATATTTTGTATG
1 TATG-TATGTATA-TTTGTATG
25178963 T
1 T
25178964 TCTGTTTACT
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
20 8 0.14
21 18 0.32
22 12 0.21
24 3 0.05
25 11 0.20
26 4 0.07
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.57
Consensus pattern (20 bp):
TATGTATGTATATTTGTATG
Found at i:25178922 original size:46 final size:46
Alignment explanation
Indices: 25178854--25178955 Score: 159
Period size: 46 Copynumber: 2.2 Consensus size: 46
25178844 TGTATATTAT
* *
25178854 TATGTATGTTATGTTCACTGTTATGTTTGTATATTTGTATGTATGA
1 TATGTATATTAAGTTCACTGTTATGTTTGTATATTTGTATGTATGA
* * *
25178900 TATGTATATTAAGTTTAGTGTTATGTTTGTATATTTGTATGTATGT
1 TATGTATATTAAGTTCACTGTTATGTTTGTATATTTGTATGTATGA
25178946 TATGTATATT
1 TATGTATATT
25178956 TTGTATGTTC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.24, C:0.02, G:0.19, T:0.56
Consensus pattern (46 bp):
TATGTATATTAAGTTCACTGTTATGTTTGTATATTTGTATGTATGA
Found at i:25178961 original size:55 final size:55
Alignment explanation
Indices: 25178900--25179033 Score: 169
Period size: 55 Copynumber: 2.4 Consensus size: 55
25178890 GTATGTATGA
* * * * * * * *
25178900 TATGTATATTAAGTTTAGTGTTATGTTTGTATATTTGTATGTATGTTATGTATAT
1 TATGTATGTTATGTTTACTGTTATGCTTGTATAGTTGTATGTATATCATGTACAT
* *
25178955 TTTGTATGTTCTGTTTACTGTTATGCTTGTATAGTTGTATGTATATCATGTACAT
1 TATGTATGTTATGTTTACTGTTATGCTTGTATAGTTGTATGTATATCATGTACAT
*
25179010 TATGTATGTTATGTTTACTATTAT
1 TATGTATGTTATGTTTACTGTTAT
25179034 ATGTATTATG
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.23, C:0.04, G:0.17, T:0.55
Consensus pattern (55 bp):
TATGTATGTTATGTTTACTGTTATGCTTGTATAGTTGTATGTATATCATGTACAT
Found at i:25181339 original size:45 final size:45
Alignment explanation
Indices: 25181288--25181497 Score: 303
Period size: 45 Copynumber: 4.7 Consensus size: 45
25181278 TGTCAATGTA
** * *
25181288 AATATTCAAGCCAAGTTAAGGCTTAGTGGGCTACGAGACGGAGAT
1 AATATTCAAGCCAAGTTAAGGCTTAGCAGGCTACGAGCCGGTGAT
* * *
25181333 AATATTCAAGCCAAGTTAAGGCTTAGCAGGCTACGAGCTGGCGTT
1 AATATTCAAGCCAAGTTAAGGCTTAGCAGGCTACGAGCCGGTGAT
* *
25181378 AATATTCAAACCAAGTTAAGGCTTAGCAGGCTACGAGCCAGTGAT
1 AATATTCAAGCCAAGTTAAGGCTTAGCAGGCTACGAGCCGGTGAT
* * *
25181423 AATATTGAAGCCAAGTTAAGGCTTAGGAGGCTACGAGCCGGTGTT
1 AATATTCAAGCCAAGTTAAGGCTTAGCAGGCTACGAGCCGGTGAT
*
25181468 AATATTCAAGCCAAGTTAAGGTTTAGCAGG
1 AATATTCAAGCCAAGTTAAGGCTTAGCAGG
25181498 ATGTAAGTCC
Statistics
Matches: 146, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 146 1.00
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (45 bp):
AATATTCAAGCCAAGTTAAGGCTTAGCAGGCTACGAGCCGGTGAT
Found at i:25184717 original size:279 final size:279
Alignment explanation
Indices: 25184209--25185046 Score: 1615
Period size: 279 Copynumber: 3.0 Consensus size: 279
25184199 TCTGAAAATA
25184209 AGTTGCCTGTCGAATCAACTGATTGTGTTATTAAAGTGACCAACCCTTTAAGTCATAGTGTTATA
1 AGTTGCCTGTCGAATCAACTGATTGTGTTATTAAAGTGACCAACCCTTTAAGTCATAGTGTTATA
25184274 GTTGATCTAGTGTGTAAGTGATGTCCGTTAAAAGTTCAAAGTCGTGATTTCCCTACAGATTTAAT
66 GTTGATCTAGTGTGTAAGTGATGTCCGTTAAAAGTTCAAAGTCGTGATTTCCCTACAGATTTAAT
25184339 GTTACTTCCTTTCAATGAATTTGATGTTATCCTGGGTATGGACTAGTTGAATATTCATGATGTTG
131 GTTACTTCCTTTCAATGAATTTGATGTTATCCTGGGTATGGACTAGTTGAATATTCATGATGTTG
*
25184404 TGGTTAATTGTCGAATAAAGATGGTTGATTTGAAGACTCAAGATGGTAAGGTGATTACTATTGTT
196 TCGTTAATTGTCGAATAAAGATGGTTGATTTGAAGACTCAAGATGGTAAGGTGATTACTATTGTT
25184469 TTGGAAAAATGCGACCTTG
261 TTGGAAAAATGCGACCTTG
25184488 AGTTG-CTGGTCGAATCAACTGATTGTGTTATTAAAGTGACCAACCCTTTAAGTCATAGTGTTAT
1 AGTTGCCT-GTCGAATCAACTGATTGTGTTATTAAAGTGACCAACCCTTTAAGTCATAGTGTTAT
25184552 AGTTGATCTAGTGTGTAAGTGATGTCCGTTAAAAGTTCAAAGTCGTGATTTCCCTACAGATTTAA
65 AGTTGATCTAGTGTGTAAGTGATGTCCGTTAAAAGTTCAAAGTCGTGATTTCCCTACAGATTTAA
25184617 TGTTACTTCCTTTCAATGAATTTGATGTTATCCTGGGTATGGACTAGTTGAATATTCATGATGTT
130 TGTTACTTCCTTTCAATGAATTTGATGTTATCCTGGGTATGGACTAGTTGAATATTCATGATGTT
25184682 GTCGTTAATTGTCGAATAAAGATGGTTGATTTGAAGACTCAAGATGGTAAGGTGATTACTATTGT
195 GTCGTTAATTGTCGAATAAAGATGGTTGATTTGAAGACTCAAGATGGTAAGGTGATTACTATTGT
*
25184747 TTTGGAAAAATGTGACCTTG
260 TTTGGAAAAATGCGACCTTG
25184767 AGTTGCCTGTCGAATCAACTGATTGTGTTATTAAAGTGACCAACCCTTTAAGTCATAGTGTTATA
1 AGTTGCCTGTCGAATCAACTGATTGTGTTATTAAAGTGACCAACCCTTTAAGTCATAGTGTTATA
25184832 GTTGATCTAGTGTGTAAGTGATGTCCGTTAAAAGTTCAAAGTCGTGATTTCCCTACAGATTTAAT
66 GTTGATCTAGTGTGTAAGTGATGTCCGTTAAAAGTTCAAAGTCGTGATTTCCCTACAGATTTAAT
* *
25184897 GTTACTTCCTTTTAATGAATTTGATGTTATCCTGGGTATGGACTAGTTGAATATTCATGATGTTA
131 GTTACTTCCTTTCAATGAATTTGATGTTATCCTGGGTATGGACTAGTTGAATATTCATGATGTTG
25184962 TCGTTAATTGTCGAATAAAGATGGTTGATTTGAAGACTCAAGATGGTAAGGTGATTACTATTGTT
196 TCGTTAATTGTCGAATAAAGATGGTTGATTTGAAGACTCAAGATGGTAAGGTGATTACTATTG-T
25185027 TTTGGAAAAATGCGACCTTG
260 TTTGGAAAAATGCGACCTTG
25185047 CTACAAAAAT
Statistics
Matches: 551, Mismatches: 5, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
278 2 0.00
279 527 0.96
280 22 0.04
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (279 bp):
AGTTGCCTGTCGAATCAACTGATTGTGTTATTAAAGTGACCAACCCTTTAAGTCATAGTGTTATA
GTTGATCTAGTGTGTAAGTGATGTCCGTTAAAAGTTCAAAGTCGTGATTTCCCTACAGATTTAAT
GTTACTTCCTTTCAATGAATTTGATGTTATCCTGGGTATGGACTAGTTGAATATTCATGATGTTG
TCGTTAATTGTCGAATAAAGATGGTTGATTTGAAGACTCAAGATGGTAAGGTGATTACTATTGTT
TTGGAAAAATGCGACCTTG
Found at i:25188573 original size:21 final size:21
Alignment explanation
Indices: 25188526--25188575 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
25188516 AATGTAGACC
* *
25188526 TCTACTGATACAAGTGACAGT
1 TCTACCGATACAAGTGACACT
*
25188547 TCTACCGATACAAGTGACTCT
1 TCTACCGATACAAGTGACACT
*
25188568 TGTACCGA
1 TCTACCGA
25188576 AATAAGTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (21 bp):
TCTACCGATACAAGTGACACT
Found at i:25189406 original size:52 final size:52
Alignment explanation
Indices: 25189323--25189606 Score: 390
Period size: 52 Copynumber: 5.5 Consensus size: 52
25189313 TTTCATTTAG
* * *
25189323 TACTCACGATGACACATAGTTATCGGACCTCACAATCCGTAAAGGATTCACA
1 TACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATA
** ** * *
25189375 TACTCACGATTTCATGTAGTCATCGAACCTCATAATCCATAAAGGATTCATA
1 TACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATA
* * * *
25189427 TACTCATGATGACACATAGTCCTTGGACCTCATAATTCGTAAAGGATTCATA
1 TACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATA
* *
25189479 TACTCACGATGACACATAATCATCGGACCTCATAATCTGTAAAGGATTCATA
1 TACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATA
* * *
25189531 TACTCACGATAACACATAGTCATCAGACCTCATAATCTGTAAAGGATTCATA
1 TACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATA
*
25189583 TACTCAC-ATGAGACATAGTCATCG
1 TACTCACGATGACACATAGTCATCG
25189607 AACTCTTTTA
Statistics
Matches: 201, Mismatches: 31, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
51 14 0.07
52 187 0.93
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (52 bp):
TACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATA
Found at i:25191994 original size:45 final size:45
Alignment explanation
Indices: 25191774--25191983 Score: 312
Period size: 45 Copynumber: 4.7 Consensus size: 45
25191764 TCAATGTTAC
*
25191774 TATTTAAGCCAAGTTAAGGCTTAGCAGGCTACGAGCCGGTGATAA
1 TATTCAAGCCAAGTTAAGGCTTAGCAGGCTACGAGCCGGTGATAA
* * *
25191819 TATTCAAGCCAAGTTAAGGCTTAGCAGGCCACAAGCCGGTGTTAA
1 TATTCAAGCCAAGTTAAGGCTTAGCAGGCTACGAGCCGGTGATAA
* *
25191864 TATTCAAGCCAAGTTAAGGCTTAGCAAGCTACGAGCCAGTGATAA
1 TATTCAAGCCAAGTTAAGGCTTAGCAGGCTACGAGCCGGTGATAA
* * * *
25191909 TTTTCAAGCCAAGTTAATGCTTAGTAGGCTACGAGCCGGTGTTAA
1 TATTCAAGCCAAGTTAAGGCTTAGCAGGCTACGAGCCGGTGATAA
* *
25191954 TACTCAAGCCAAGTTAAGGTTTAGCAGGCT
1 TATTCAAGCCAAGTTAAGGCTTAGCAGGCT
25191984 GTAAGCCGGT
Statistics
Matches: 145, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 145 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (45 bp):
TATTCAAGCCAAGTTAAGGCTTAGCAGGCTACGAGCCGGTGATAA
Found at i:25195238 original size:11 final size:10
Alignment explanation
Indices: 25195222--25195283 Score: 61
Period size: 11 Copynumber: 5.7 Consensus size: 10
25195212 TTTTGTTTAG
25195222 TATTTAATTTT
1 TATTT-ATTTT
25195233 TATTTAATTTT
1 TATTT-ATTTT
*
25195244 TACTTATTATT
1 TATTTATT-TT
25195255 TATTTATTTGT
1 TATTTATTT-T
*
25195266 GATTTATTTT
1 TATTTATTTT
25195276 TACTTTAT
1 TA-TTTAT
25195284 ATCTAATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
10 6 0.14
11 38 0.86
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.69
Consensus pattern (10 bp):
TATTTATTTT
Found at i:25199171 original size:15 final size:13
Alignment explanation
Indices: 25199147--25199185 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 13
25199137 TGCATATGCA
25199147 TACATGCATTCAT
1 TACATGCATTCAT
25199160 TAGCATTGCATTTCAT
1 TA-CA-TGCA-TTCAT
25199176 TACATGCATT
1 TACATGCATT
25199186 AAATTTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.17
14 6 0.26
15 6 0.26
16 7 0.30
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (13 bp):
TACATGCATTCAT
Found at i:25204348 original size:101 final size:99
Alignment explanation
Indices: 25204101--25204377 Score: 301
Period size: 99 Copynumber: 2.8 Consensus size: 99
25204091 AAGGGCAGAG
* * *
25204101 TAAAACAAGTAGCAAATCTCAACCTCCACTAAAGTTGCAGTGGAATGGAGTGAA---GCCACAAC
1 TAAAACAAGTAACGAATCTCAATCTCC-CTAAAGTTGCAGTGGAATGGAGTGAAGTTGCCAC-A-
* * * * *
25204163 CTCAAATCCTATATCCCTGAAGTTACAATGGATCAGAT
63 C-CAAATCCTATCTTCCTGAAGTTACAATGAAGCAAAT
* * *
25204201 TAAAACAAGTAACGAACCTCAATCTCCCTAAAGTTACAGTGGAATGGAGCGAAGTTGCCACACCA
1 TAAAACAAGTAACGAATCTCAATCTCCCTAAAGTTGCAGTGGAATGGAGTGAAGTTGCCACACCA
* *
25204266 AATCCTATCTTCTTGAAGTTACAGTGAAGCAAAT
66 AATCCTATCTTCCTGAAGTTACAATGAAGCAAAT
* * * *
25204300 TAAAACTACAGTAGCGGATCTCAATCTCCCTAAAGTTGTAGTGGAATGGAGTGAAGTT-ACATCA
1 TAAAAC-A-AGTAACGAATCTCAATCTCCCTAAAGTTGCAGTGGAATGGAGTGAAGTTGCCA-CA
*
25204364 CCAAATCCAATCTT
63 CCAAATCCTATCTT
25204378 TTACCCCTAA
Statistics
Matches: 150, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
99 59 0.39
100 27 0.18
101 59 0.39
102 5 0.03
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (99 bp):
TAAAACAAGTAACGAATCTCAATCTCCCTAAAGTTGCAGTGGAATGGAGTGAAGTTGCCACACCA
AATCCTATCTTCCTGAAGTTACAATGAAGCAAAT
Found at i:25204436 original size:47 final size:47
Alignment explanation
Indices: 25204362--25204505 Score: 216
Period size: 47 Copynumber: 3.1 Consensus size: 47
25204352 GAAGTTACAT
* * * *
25204362 CACCAAATCCAATCTTTTACCCCTAATCTCGAGGGGCAGATTAAAGC
1 CACCATATCCAATCTTTTACCCCTAATCTAGAGGGGCAAATTGAAGC
* * * *
25204409 CATCATATCCAGTCTTTTACCCATAATCTAGAGGGGCAAATTGAAGT
1 CACCATATCCAATCTTTTACCCCTAATCTAGAGGGGCAAATTGAAGC
25204456 CACCATATCCAATCTTTTACCCCTAATCTAGAGGGGCAAATTGAAGC
1 CACCATATCCAATCTTTTACCCCTAATCTAGAGGGGCAAATTGAAGC
25204503 CAC
1 CAC
25204506 TGATAGTATT
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 85 1.00
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (47 bp):
CACCATATCCAATCTTTTACCCCTAATCTAGAGGGGCAAATTGAAGC
Found at i:25204936 original size:38 final size:37
Alignment explanation
Indices: 25204789--25204938 Score: 192
Period size: 37 Copynumber: 4.0 Consensus size: 37
25204779 TCCAAAATTA
* *
25204789 CGCCCAAACATGTCGCTACATGAGCACTTCTAGATTA
1 CGCCCAAACATGTCGCCACATGAGCACTTCTAGATTG
* ***
25204826 CGCCCAAACATGTTGCTGTATGAGCACTTCTAGATTG
1 CGCCCAAACATGTCGCCACATGAGCACTTCTAGATTG
* *
25204863 CGCCCAAACATGTCGCCGCATGAGCACCTCTAGATTG
1 CGCCCAAACATGTCGCCACATGAGCACTTCTAGATTG
* * *
25204900 CGCCCAAAAACTGTCGCCACATGAACACTTCCAGATTG
1 CGCCCAAACA-TGTCGCCACATGAGCACTTCTAGATTG
25204938 C
1 C
25204939 ACCAAAACTG
Statistics
Matches: 99, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
37 75 0.76
38 24 0.24
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
CGCCCAAACATGTCGCCACATGAGCACTTCTAGATTG
Found at i:25208226 original size:17 final size:17
Alignment explanation
Indices: 25208206--25208243 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
25208196 ACATTTCATC
*
25208206 TGTCACTGCATTTTTAT
1 TGTCACTACATTTTTAT
25208223 TGTCACTACATTTTTAT
1 TGTCACTACATTTTTAT
25208240 TGTC
1 TGTC
25208244 GTTGCATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.18, G:0.11, T:0.53
Consensus pattern (17 bp):
TGTCACTACATTTTTAT
Found at i:25209516 original size:38 final size:37
Alignment explanation
Indices: 25209395--25209536 Score: 133
Period size: 37 Copynumber: 3.8 Consensus size: 37
25209385 GCAATTTTAA
* *
25209395 TCCAGAATTGTGCCCAAACATGTCGCTGCATGAGCACT
1 TCCAG-ATTGCGCCCAAACATGTCGCAGCATGAGCACT
* * * *
25209433 TCTAGATTGCGTCCAAACATGTCGCCGCATGAGCACC
1 TCCAGATTGCGCCCAAACATGTCGCAGCATGAGCACT
* * * * *
25209470 TCCGGATTGGGCCCAAAAATTGTCGCAACATGAACACT
1 TCCAGATTGCGCCCAAACA-TGTCGCAGCATGAGCACT
* * *
25209508 TCCAGATTGCACCAAAAC-TGTCGCTGCAT
1 TCCAGATTGCGCCCAAACATGTCGCAGCAT
25209537 AAATATTCTT
Statistics
Matches: 82, Mismatches: 21, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
36 9 0.11
37 42 0.51
38 31 0.38
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (37 bp):
TCCAGATTGCGCCCAAACATGTCGCAGCATGAGCACT
Found at i:25210671 original size:45 final size:45
Alignment explanation
Indices: 25210598--25211051 Score: 432
Period size: 45 Copynumber: 10.0 Consensus size: 45
25210588 TAGTGTGATT
* * * *
25210598 AGCCACCATCCAATCTTTTTCCCTTAATCCAGAAGGTCAGATTTA
1 AGCCACCATCCAATCTTTTACCCCTAATCCAGAAGGGCAGATTGA
* *
25210643 AGCCACCATCCAATCTTTTACCCCTAATCTAGATGGGCAGATTGA
1 AGCCACCATCCAATCTTTTACCCCTAATCCAGAAGGGCAGATTGA
* * ** * *
25210688 AGCCAACATCCAGTCTTTTACCTTTAATCTA-AAGGGGAAGATTGA
1 AGCCACCATCCAATCTTTTACCCCTAATCCAGAA-GGGCAGATTGA
* * * ** *
25210733 AGCAACCATCCAGTCTTTTACCCTTAATCCAGTGGGGCAAATTGA
1 AGCCACCATCCAATCTTTTACCCCTAATCCAGAAGGGCAGATTGA
* * * *
25210778 AGCCACCATCCAGTCTTTTACCTCAAATCCA-AAGAAGCAGATTGA
1 AGCCACCATCCAATCTTTTACCCCTAATCCAGAAG-GGCAGATTGA
* * * *
25210823 AGCCACCATTCAGTCTTTTACCCCTAATCTAGAAGGGTAGATTGA
1 AGCCACCATCCAATCTTTTACCCCTAATCCAGAAGGGCAGATTGA
* * * * *
25210868 AGCAACCATCCAATCTTTTACCCATAATCCAAAAAGGTAGATTGA
1 AGCCACCATCCAATCTTTTACCCCTAATCCAGAAGGGCAGATTGA
* ** * * *
25210913 AACCGTCATCCAATCTTTTACCCCTAATCCAAAAAGGTAGATTGA
1 AGCCACCATCCAATCTTTTACCCCTAATCCAGAAGGGCAGATTGA
** **
25210958 AATCGTCATCCAATCTTTTACCCCTAATCCA-AAGGGGCAGATTGA
1 AGCCACCATCCAATCTTTTACCCCTAATCCAGAA-GGGCAGATTGA
*
25211003 AGTCACCAAATCCAATCTTTTACCCCTAAATCCAG--GGGACAGATTGA
1 AGCCACC--ATCCAATCTTTTACCCCT-AATCCAGAAGGG-CAGATTGA
25211050 AG
1 AG
25211052 TCAAGACACC
Statistics
Matches: 347, Mismatches: 52, Indels: 18
0.83 0.12 0.04
Matches are distributed among these distances:
44 4 0.01
45 303 0.87
46 6 0.02
47 28 0.08
48 6 0.02
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (45 bp):
AGCCACCATCCAATCTTTTACCCCTAATCCAGAAGGGCAGATTGA
Found at i:25212551 original size:11 final size:10
Alignment explanation
Indices: 25212492--25212552 Score: 50
Period size: 11 Copynumber: 5.6 Consensus size: 10
25212482 TTTATTTAGC
25212492 ATTTAATTTTT
1 ATTT-ATTTTT
25212503 ATTTAATTTTT
1 ATTT-ATTTTT
*
25212514 ACTTATTATTT
1 ATTTATT-TTT
* *
25212525 ATTCATTTGTG
1 ATTTATTT-TT
25212536 ATTTATTTTT
1 ATTTATTTTT
25212546 ACTTTAT
1 A-TTTAT
25212553 ATCTAATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
10 6 0.15
11 35 0.85
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:25218625 original size:15 final size:16
Alignment explanation
Indices: 25218590--25218635 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
25218580 ACATGGTTAA
25218590 GGAAAACGATGGTGAG
1 GGAAAACGATGGTGAG
*
25218606 GGAAAACGATGTTG-G
1 GGAAAACGATGGTGAG
*
25218621 GGAAAACAATGGTGA
1 GGAAAACGATGGTGA
25218636 AAACGAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.39, C:0.07, G:0.39, T:0.15
Consensus pattern (16 bp):
GGAAAACGATGGTGAG
Found at i:25223407 original size:18 final size:18
Alignment explanation
Indices: 25223381--25223415 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
25223371 TTTTCTTTTC
25223381 TTTTGTTCTTTAATTAAAA
1 TTTTGTTC-TTAATTAAAA
25223400 TTTT-TTCTTAATTAAA
1 TTTTGTTCTTAATTAAA
25223416 TGAAATTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 3 0.19
19 4 0.25
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTGTTCTTAATTAAAA
Found at i:25224462 original size:15 final size:15
Alignment explanation
Indices: 25224408--25224473 Score: 53
Period size: 15 Copynumber: 4.2 Consensus size: 15
25224398 TTTATACTAC
*
25224408 AAAATATTAATTATT
1 AAAATATTAATAATT
* *
25224423 AATATATTTATAATTAT
1 AAAATATTAATAA-T-T
*
25224440 AAAAAATATTTATAATT
1 --AAAATATTAATAATT
25224457 AAAATATTAAT-ATT
1 AAAATATTAATAATT
25224471 AAA
1 AAA
25224474 TACTTTTCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
14 6 0.14
15 20 0.48
16 1 0.02
17 2 0.05
18 1 0.02
19 12 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAAATATTAATAATT
Found at i:25224629 original size:21 final size:22
Alignment explanation
Indices: 25224605--25224648 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
25224595 ATGTTTAATA
25224605 ATATTGAA-ATTATAAT-ATTTT
1 ATATT-AATATTATAATAATTTT
*
25224626 ATATTAATATTTTAATAATTTT
1 ATATTAATATTATAATAATTTT
25224648 A
1 A
25224649 AATATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 12 0.60
22 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATATTAATATTATAATAATTTT
Found at i:25224669 original size:28 final size:29
Alignment explanation
Indices: 25224631--25224687 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
25224621 ATTTTATATT
* * *
25224631 AATATTTTAATAATTTTAAATATT-TTTA
1 AATATTATAATAATATTAAAGATTATTTA
25224659 AATATTATAATAATATTAAAGATTATTTA
1 AATATTATAATAATATTAAAGATTATTTA
25224688 TTTTAAGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (29 bp):
AATATTATAATAATATTAAAGATTATTTA
Found at i:25231514 original size:17 final size:17
Alignment explanation
Indices: 25231492--25231525 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
25231482 TAAGTGGATG
25231492 TCTAACTCCTTTAAACC
1 TCTAACTCCTTTAAACC
25231509 TCTAACTCCTTTAAACC
1 TCTAACTCCTTTAAACC
25231526 CTCATTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (17 bp):
TCTAACTCCTTTAAACC
Found at i:25239604 original size:9 final size:9
Alignment explanation
Indices: 25239590--25239619 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
25239580 TCAATTTTAC
25239590 AATTCGAGT
1 AATTCGAGT
25239599 AATTCGAGT
1 AATTCGAGT
*
25239608 AATTCGAAT
1 AATTCGAGT
25239617 AAT
1 AAT
25239620 AGATTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (9 bp):
AATTCGAGT
Found at i:25239752 original size:19 final size:19
Alignment explanation
Indices: 25239687--25239761 Score: 82
Period size: 19 Copynumber: 3.9 Consensus size: 19
25239677 TCTCTTTAGA
25239687 AAAAATTCAAAATAAATT-T
1 AAAAATTCAAAA-AAATTAT
* * *
25239706 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAAAAATTAT
25239725 AAAAATT-AAAAAAATTAT
1 AAAAATTCAAAAAAATTAT
*
25239743 AAAAATTTAATAAAAATTA
1 AAAAATTCAA-AAAAATTA
25239762 ATATATATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
18 19 0.40
19 20 0.43
20 8 0.17
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATTCAAAAAAATTAT
Found at i:25239762 original size:10 final size:10
Alignment explanation
Indices: 25239723--25239764 Score: 61
Period size: 9 Copynumber: 4.3 Consensus size: 10
25239713 CAAAATATTT
25239723 ATAAAAATTA
1 ATAAAAATTA
25239733 A-AAAAATT-
1 ATAAAAATTA
25239741 ATAAAAATTTA
1 ATAAAAA-TTA
25239752 ATAAAAATTA
1 ATAAAAATTA
25239762 ATA
1 ATA
25239765 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 1 0.03
9 12 0.41
10 9 0.31
11 7 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
ATAAAAATTA
Found at i:25241108 original size:21 final size:20
Alignment explanation
Indices: 25241084--25241133 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
25241074 CTCAAAAAGT
25241084 TATAAAAAAAAAACTAAAGAA
1 TATAAAAAAAAAACTAAA-AA
* ** *
25241105 TATATAAAAAAATTTAAAAG
1 TATAAAAAAAAAACTAAAAA
25241125 TATAAAAAA
1 TATAAAAAA
25241134 CTCAAAACCT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (20 bp):
TATAAAAAAAAAACTAAAAA
Found at i:25246127 original size:23 final size:23
Alignment explanation
Indices: 25246083--25246140 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
25246073 TTCATGAATG
* *
25246083 TGTTCAATTATATGTTCGTGAACA
1 TGTTCGATTA-ATATTCGTGAACA
25246107 TGTTCGATTAATATTCGTGAACA
1 TGTTCGATTAATATTCGTGAACA
25246130 TGTTCGATTAA
1 TGTTCGATTAA
25246141 GTTAAATGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 23 0.72
24 9 0.28
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.41
Consensus pattern (23 bp):
TGTTCGATTAATATTCGTGAACA
Found at i:25246150 original size:23 final size:23
Alignment explanation
Indices: 25246101--25246158 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
25246091 TATATGTTCG
***
25246101 TGAACATGTTCGATTAATATTCG
1 TGAACATGTTCGATTAATATAAA
25246124 TGAACATGTTCGATTAAGT-TAAA
1 TGAACATGTTCGATTAA-TATAAA
25246147 TGAACATGTTCG
1 TGAACATGTTCG
25246159 TGAACATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 30 0.97
24 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (23 bp):
TGAACATGTTCGATTAATATAAA
Found at i:25246168 original size:23 final size:23
Alignment explanation
Indices: 25246101--25246169 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
25246091 TATATGTTCG
* **
25246101 TGAACATGTTCGATTAATATT-CG
1 TGAACATGTTCGATGAA-ATTAAA
* *
25246124 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
25246147 TGAACATGTTCG-TGAACATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
25246170 CAAACGAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
22 5 0.13
23 34 0.87
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:25256945 original size:21 final size:22
Alignment explanation
Indices: 25256914--25256955 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
25256904 ATTCACATGT
25256914 TTTCTTACTCATGATTCTTTTG
1 TTTCTTACTCATGATTCTTTTG
**
25256936 TTTC-TACTCATTTTTCTTTT
1 TTTCTTACTCATGATTCTTTT
25256956 CTTTTTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.12, C:0.19, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTCTTACTCATGATTCTTTTG
Found at i:25262130 original size:23 final size:24
Alignment explanation
Indices: 25262098--25262142 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
25262088 TTAATTAAAT
25262098 AAAAAGTAAAGAAAACAAAATACG
1 AAAAAGTAAAGAAAACAAAATACG
* *
25262122 AAAAA-TAAATAAAATAAAATA
1 AAAAAGTAAAGAAAACAAAATA
25262143 AAATCGTAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.76, C:0.04, G:0.07, T:0.13
Consensus pattern (24 bp):
AAAAAGTAAAGAAAACAAAATACG
Found at i:25262497 original size:12 final size:12
Alignment explanation
Indices: 25262480--25262512 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
25262470 AAGAGCATAG
25262480 AAATAAAAGAGA
1 AAATAAAAGAGA
*
25262492 AAATAAAATAGA
1 AAATAAAAGAGA
25262504 AAATAAAAG
1 AAATAAAAG
25262513 CAAGATGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (12 bp):
AAATAAAAGAGA
Found at i:25274087 original size:16 final size:16
Alignment explanation
Indices: 25274066--25274127 Score: 97
Period size: 16 Copynumber: 3.9 Consensus size: 16
25274056 TGAATTACTG
25274066 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
* * *
25274082 ATTACAGCTTTGTTCC
1 ATTACAACTCTATTCC
25274098 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
25274114 ATTACAACTCTATT
1 ATTACAACTCTATT
25274128 ATATTCTAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.29, C:0.27, G:0.03, T:0.40
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:25277000 original size:22 final size:22
Alignment explanation
Indices: 25276975--25277016 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
25276965 AAATTCTAAT
25276975 AAACCAACAACAATAACACAAC
1 AAACCAACAACAATAACACAAC
* * *
25276997 AAACTAATAACAGTAACACA
1 AAACCAACAACAATAACACA
25277017 TTAGTTCAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.26, G:0.02, T:0.10
Consensus pattern (22 bp):
AAACCAACAACAATAACACAAC
Found at i:25279204 original size:30 final size:29
Alignment explanation
Indices: 25279129--25279189 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
25279119 CAAGAAATTA
*
25279129 ATAATTAATAATAATTATTTAACCCAAAT
1 ATAATCAATAATAATTATTTAACCCAAAT
25279158 ATAATCAATAATAATTATTTAACCCAAA-
1 ATAATCAATAATAATTATTTAACCCAAAT
25279186 ATAA
1 ATAA
25279190 ATTGGATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 4 0.13
29 27 0.87
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (29 bp):
ATAATCAATAATAATTATTTAACCCAAAT
Found at i:25288087 original size:61 final size:58
Alignment explanation
Indices: 25287902--25288072 Score: 184
Period size: 60 Copynumber: 2.9 Consensus size: 58
25287892 TTAATATAAC
* * * *
25287902 ATTTGGTACCCGAACTT-ACAAC-TTTTCTTAATTTAGTACCTAAATTTTTTTTACTCA
1 ATTTGGTACCTGAACTTAAC-ACTTTTTCCTAATTTGGTATCTAAATTTTTTTTACTCA
* ** *
25287959 ATTTGGTACTTGAACTTAACACTTTTTCCTAATTTGGTATCTAAACTCTTTTTGGACCCA
1 ATTTGGTACCTGAACTTAACACTTTTTCCTAATTTGGTATCTAAA-T-TTTTTTTACTCA
** * *
25288019 ATTTGGTACCTGAACTTGGCATTTTTTTCCTAATTTGGTATCTAAGTTTTTTTT
1 ATTTGGTACCTGAACTTAACA-CTTTTTCCTAATTTGGTATCTAAATTTTTTTT
25288073 TAATTCGATT
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
57 17 0.18
58 21 0.22
59 6 0.06
60 28 0.30
61 22 0.23
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (58 bp):
ATTTGGTACCTGAACTTAACACTTTTTCCTAATTTGGTATCTAAATTTTTTTTACTCA
Found at i:25291787 original size:15 final size:16
Alignment explanation
Indices: 25291769--25291811 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 16
25291759 TTTTAAGTAT
25291769 TATATAAAAAAAACATA
1 TATATAAAAAAAACA-A
25291786 TATGATAAAAAAAACAA
1 TAT-ATAAAAAAAACAA
25291803 -ATATAAAAA
1 TATATAAAAA
25291812 TCATTTTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.28
16 2 0.08
17 4 0.16
18 12 0.48
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (16 bp):
TATATAAAAAAAACAA
Found at i:25293605 original size:53 final size:53
Alignment explanation
Indices: 25293529--25293631 Score: 188
Period size: 53 Copynumber: 1.9 Consensus size: 53
25293519 AGGACTAAAA
*
25293529 TTTCAAAATTCAAAAAGTATAAAAACTAAAATTGATCAAATTAAAATACAAAT
1 TTTCAAAATTCAAAAAATATAAAAACTAAAATTGATCAAATTAAAATACAAAT
*
25293582 TTTCAAAATTCAAAAAATATAAAAACTAAAATTGATCAAATTAAATTACA
1 TTTCAAAATTCAAAAAATATAAAAACTAAAATTGATCAAATTAAAATACA
25293632 TGTACTAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.29
Consensus pattern (53 bp):
TTTCAAAATTCAAAAAATATAAAAACTAAAATTGATCAAATTAAAATACAAAT
Found at i:25299367 original size:16 final size:15
Alignment explanation
Indices: 25299346--25299376 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
25299336 ATTTGTTAAT
25299346 AAAAGAAAAAGAAAAA
1 AAAAGAAAAA-AAAAA
25299362 AAAAGAAAAAAAAAA
1 AAAAGAAAAAAAAAA
25299377 GGGGAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAAAA
Found at i:25299370 original size:9 final size:10
Alignment explanation
Indices: 25299346--25299375 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
25299336 ATTTGTTAAT
25299346 AAAAGAAAAAG
1 AAAA-AAAAAG
25299357 AAAAAAAAAG
1 AAAAAAAAAG
25299367 AAAAAAAAA
1 AAAAAAAAA
25299376 AGGGGAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:25301574 original size:20 final size:20
Alignment explanation
Indices: 25301544--25301582 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
25301534 TTCTACATCT
25301544 ATATTTATA-TTTTAAAATG
1 ATATTTATATTTTTAAAATG
25301563 ATATTATATATTTTTAAAAT
1 ATATT-TATATTTTTAAAAT
25301583 TTTATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 4 0.22
21 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
ATATTTATATTTTTAAAATG
Found at i:25302837 original size:11 final size:11
Alignment explanation
Indices: 25302806--25302841 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
25302796 ATAAAATTAT
25302806 AAAATTATAAA
1 AAAATTATAAA
25302817 CAAAATTTATAAA
1 -AAAA-TTATAAA
25302830 AAAATTATAAA
1 AAAATTATAAA
25302841 A
1 A
25302842 TTATAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.35
12 8 0.35
13 7 0.30
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:25302872 original size:8 final size:8
Alignment explanation
Indices: 25302795--25302855 Score: 56
Period size: 8 Copynumber: 7.6 Consensus size: 8
25302785 TTAAAATTAA
25302795 TATAAAAT
1 TATAAAAT
25302803 TATAAAAT
1 TATAAAAT
25302811 TAT-AAA-
1 TATAAAAT
* *
25302817 CA-AAATT
1 TATAAAAT
25302824 TATAAAAAAAT
1 TAT---AAAAT
25302835 TATAAAAT
1 TATAAAAT
25302843 TATAAAAT
1 TATAAAAT
25302851 TATAA
1 TATAA
25302856 TTTTTATTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
6 3 0.07
7 4 0.09
8 29 0.67
11 7 0.16
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (8 bp):
TATAAAAT
Found at i:25302972 original size:133 final size:133
Alignment explanation
Indices: 25302828--25303105 Score: 556
Period size: 133 Copynumber: 2.1 Consensus size: 133
25302818 AAAATTTATA
25302828 AAAAAATTATAAAATTATAAAATTATAATTTTTATTAAAAAATTAATAATACCGATTCAATAAAA
1 AAAAAATTATAAAATTATAAAATTATAATTTTTATTAAAAAATTAATAATACCGATTCAATAAAA
25302893 GAGTAGGTCAAATTTGTTAAAATCTTATAACCATTAGATTTAAATGGGTCAGGATTGTTATTTTT
66 GAGTAGGTCAAATTTGTTAAAATCTTATAACCATTAGATTTAAATGGGTCAGGATTGTTATTTTT
25302958 AAT
131 AAT
25302961 AAAAAATTATAAAATTATAAAATTATAATTTTTATTAAAAAATTAATAATACCGATTCAATAAAA
1 AAAAAATTATAAAATTATAAAATTATAATTTTTATTAAAAAATTAATAATACCGATTCAATAAAA
25303026 GAGTAGGTCAAATTTGTTAAAATCTTATAACCATTAGATTTAAATGGGTCAGGATTGTTATTTTT
66 GAGTAGGTCAAATTTGTTAAAATCTTATAACCATTAGATTTAAATGGGTCAGGATTGTTATTTTT
25303091 AAT
131 AAT
25303094 AAAAAATTATAA
1 AAAAAATTATAA
25303106 TTTAAGATTT
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 145 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (133 bp):
AAAAAATTATAAAATTATAAAATTATAATTTTTATTAAAAAATTAATAATACCGATTCAATAAAA
GAGTAGGTCAAATTTGTTAAAATCTTATAACCATTAGATTTAAATGGGTCAGGATTGTTATTTTT
AAT
Found at i:25303005 original size:8 final size:8
Alignment explanation
Indices: 25302963--25302988 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
25302953 TTTTTAATAA
25302963 AAAATTAT
1 AAAATTAT
25302971 AAAATTAT
1 AAAATTAT
25302979 AAAATTAT
1 AAAATTAT
25302987 AA
1 AA
25302989 TTTTTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AAAATTAT
Found at i:25305264 original size:25 final size:25
Alignment explanation
Indices: 25305194--25305274 Score: 81
Period size: 25 Copynumber: 3.1 Consensus size: 25
25305184 TTGATATTTA
* *
25305194 AATTTTTTTGATTTAATTTCGTACTT
1 AATTTTTTT-ATTTAATTTGGTACCT
*
25305220 GAATTTGATTTTTTTTAATTTGGTACCT
1 -AATTT--TTTTATTTAATTTGGTACCT
* *
25305248 AATTTTTTTATTCAATTTGGTATCT
1 AATTTTTTTATTTAATTTGGTACCT
25305273 AA
1 AA
25305275 ATTTATTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
25 19 0.41
27 10 0.22
28 13 0.28
29 4 0.09
ACGTcount: A:0.25, C:0.07, G:0.10, T:0.58
Consensus pattern (25 bp):
AATTTTTTTATTTAATTTGGTACCT
Found at i:25305553 original size:31 final size:31
Alignment explanation
Indices: 25305474--25305546 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
25305464 TGAACCCAAA
* *
25305474 AAGTTTAAGTACCAATTTTTA-AAAAAGTGTC
1 AAGTTTAAGTACCAA-ATTAAGAAAAAGTGTC
25305505 AAGTTTAAGTACCAAATTAAGAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAAGAAAAAGTGTC
25305536 AAGTTTAAGTA
1 AAGTTTAAGTA
25305547 TTAAATTGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
30 3 0.08
31 36 0.92
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.32
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAAGAAAAAGTGTC
Found at i:25305587 original size:89 final size:89
Alignment explanation
Indices: 25305424--25305587 Score: 215
Period size: 89 Copynumber: 1.8 Consensus size: 89
25305414 AAAAGATTAG
* * *
25305424 GTACCAAATTAGGAAAAAGAGTCAAGTTAAGGTATCAAATTGAACCCAAAAAGTTTAAGTACCAA
1 GTACCAAATTAAGAAAAAGAGTCAAGTTAAGGTATCAAATTGAACCAAAAAAATTTAAGTACCAA
**
25305489 TTTTTAAAAAAGTGTCAAGTTTAA
66 TTTAAAAAAAAGTGTCAAGTTTAA
* * * *
25305513 GTACCAAATTAAGAAAAAGTGTCAAGTTTAA-GTATTAAATTGGACCAAAAAAATTTAGGTACCT
1 GTACCAAATTAAGAAAAAGAGTCAAG-TTAAGGTATCAAATTGAACCAAAAAAATTTAAGTACC-
25305577 AA-TTAAAAAAA
64 AATTTAAAAAAA
25305588 TATCAAGTTC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
89 58 0.91
90 6 0.09
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.27
Consensus pattern (89 bp):
GTACCAAATTAAGAAAAAGAGTCAAGTTAAGGTATCAAATTGAACCAAAAAAATTTAAGTACCAA
TTTAAAAAAAAGTGTCAAGTTTAA
Found at i:25307498 original size:22 final size:22
Alignment explanation
Indices: 25307473--25307542 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
25307463 ATTAAACTTC
25307473 ACAAATAAAATTTCATCATTTA
1 ACAAATAAAATTTCATCATTTA
* * * *
25307495 ACAAATTTAAA-TT-A-AACTTC
1 ACAAA-TAAAATTTCATCATTTA
25307515 ACAAATAAAATTTCATCATTTA
1 ACAAATAAAATTTCATCATTTA
25307537 ACAAAT
1 ACAAAT
25307543 CTAAAGCAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
19 4 0.11
20 10 0.28
21 2 0.06
22 16 0.44
23 4 0.11
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (22 bp):
ACAAATAAAATTTCATCATTTA
Found at i:25307522 original size:42 final size:42
Alignment explanation
Indices: 25307463--25307547 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
25307453 AGAATTCATC
*
25307463 ATTAAACTTCACAAATAAAATTTCATCATTTAACAAATTTAA
1 ATTAAACTTCACAAATAAAATTTCATCATTTAACAAATCTAA
25307505 ATTAAACTTCACAAATAAAATTTCATCATTTAACAAATCTAA
1 ATTAAACTTCACAAATAAAATTTCATCATTTAACAAATCTAA
25307547 A
1 A
25307548 GCAAACAAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (42 bp):
ATTAAACTTCACAAATAAAATTTCATCATTTAACAAATCTAA
Found at i:25307567 original size:42 final size:42
Alignment explanation
Indices: 25307473--25307567 Score: 102
Period size: 42 Copynumber: 2.3 Consensus size: 42
25307463 ATTAAACTTC
* * ** **
25307473 ACAAATAAAATTTCATCATTTAACAAATTTAAATTAAACTTC
1 ACAAAAAAAATTTCATCATTTAACAAATCTAAAGCAAACTAA
*
25307515 ACAAATAAAATTTCATCATTTAACAAATCTAAAGCAAAC-AA
1 ACAAAAAAAATTTCATCATTTAACAAATCTAAAGCAAACTAA
*
25307556 AGGAAAAAAAAT
1 A-CAAAAAAAAT
25307568 CTACACATTA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.02
42 44 0.98
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (42 bp):
ACAAAAAAAATTTCATCATTTAACAAATCTAAAGCAAACTAA
Found at i:25313246 original size:30 final size:29
Alignment explanation
Indices: 25313210--25313335 Score: 148
Period size: 29 Copynumber: 4.3 Consensus size: 29
25313200 GTAAAATGGA
* *
25313210 AATTTTTGAAAGTTTCGAGATCAAAAATGG
1 AATTTTTGAAAGTTTCGAGGT-AAAAATGT
* * *
25313240 AATTTTTGGAAGTTTGGGGGTAAAAATGT
1 AATTTTTGAAAGTTTCGAGGTAAAAATGT
*
25313269 AATTTTTAAAAGTTTCGAGGTCAAAAATGT
1 AATTTTTGAAAGTTTCGAGGT-AAAAATGT
25313299 AATTTTT-AGAAG-TTCGAGGGTAAAAATGT
1 AATTTTTGA-AAGTTTCGA-GGTAAAAATGT
25313328 AATTTTTG
1 AATTTTTG
25313336 GATAGTTTAG
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
29 45 0.54
30 38 0.46
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (29 bp):
AATTTTTGAAAGTTTCGAGGTAAAAATGT
Found at i:25313273 original size:59 final size:59
Alignment explanation
Indices: 25313195--25313335 Score: 203
Period size: 59 Copynumber: 2.4 Consensus size: 59
25313185 TTTGGACATC
* *
25313195 CGGGGGT-AAAATGGAAATTTTTGAAAGTTTCGAGATCAAAAATGGAATTTTTGGAAGTT
1 CGGGGGTAAAAAT-GTAATTTTTGAAAGTTTCGAGATCAAAAATGGAATTTTTAGAAGTT
* * * *
25313254 TGGGGGTAAAAATGTAATTTTTAAAAGTTTCGAGGTCAAAAATGTAATTTTTAGAAGTT
1 CGGGGGTAAAAATGTAATTTTTGAAAGTTTCGAGATCAAAAATGGAATTTTTAGAAGTT
*
25313313 CGAGGGTAAAAATGTAATTTTTG
1 CGGGGGTAAAAATGTAATTTTTG
25313336 GATAGTTTAG
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
59 67 0.93
60 5 0.07
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (59 bp):
CGGGGGTAAAAATGTAATTTTTGAAAGTTTCGAGATCAAAAATGGAATTTTTAGAAGTT
Found at i:25314438 original size:21 final size:20
Alignment explanation
Indices: 25314409--25314458 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 20
25314399 CCTTTTTTGT
25314409 TAATATTATTATTA-ATATTA
1 TAATATTATTATTAGAT-TTA
25314429 TAATAATTATTATTAGATTTA
1 TAAT-ATTATTATTAGATTTA
25314450 TAATTATTA
1 TAA-TATTA
25314459 CCATAACTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.15
21 20 0.74
22 3 0.11
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TAATATTATTATTAGATTTA
Found at i:25314885 original size:32 final size:32
Alignment explanation
Indices: 25314842--25314905 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
25314832 TTTTCAAAGA
* *
25314842 AAGGTTTGTAACCCTTTTTATAGAATCGCATT
1 AAGGTTCGTAACCCTTTTTACAGAATCGCATT
25314874 AAGGTTCGTAACCCTTTTTACAGAATCGCATT
1 AAGGTTCGTAACCCTTTTTACAGAATCGCATT
25314906 CGGCTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (32 bp):
AAGGTTCGTAACCCTTTTTACAGAATCGCATT
Found at i:25322235 original size:36 final size:36
Alignment explanation
Indices: 25322159--25322235 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
25322149 CTTCTATACG
* **
25322159 AACCTCTTGTTCCTCAAAAATTACCTCCTCTATGAA
1 AACCTCTTATTCCTCAAAAATTACCTCCTCTACCAA
* * *
25322195 AACCTCTTATTCCTCGAAAATTACCTCTTCTACCAC
1 AACCTCTTATTCCTCAAAAATTACCTCCTCTACCAA
25322231 AACCT
1 AACCT
25322236 GAATCTTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.30, C:0.34, G:0.04, T:0.32
Consensus pattern (36 bp):
AACCTCTTATTCCTCAAAAATTACCTCCTCTACCAA
Found at i:25325026 original size:54 final size:51
Alignment explanation
Indices: 25324846--25325091 Score: 246
Period size: 52 Copynumber: 4.8 Consensus size: 51
25324836 ATTTCACTTC
* * *
25324846 ATTCATATACTCATGATGACACATAGCCATCGGACCTTATAATCCAT-GAGAG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTT-TAATCCATAAAG-G
* * * *
25324898 ATTCGTACACTCACGATGACACAGAGTCATCGGACCTCTTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCT-TTAATCCATAAAGG
* *
25324950 ATTCATATACTCACGATAACACTTAGTCATCGGACCTTTAAATCCATAAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTTT-AATCCAT-AAAGG
* * * * * * *
25325003 TTTTCATATACTCACAATGACACTTAATCATCAGACCTCTAATCCGTAAAGG
1 -ATTCATATACTCACGATGACACATAGTCATCGGACCTTTAATCCATAAAGG
* * *
25325055 ATTCATTTACTCACGATTACAC--AGTCATCGAACCTTT
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTTT
25325092 TTTCATTTAC
Statistics
Matches: 161, Mismatches: 28, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
49 11 0.07
51 20 0.12
52 83 0.52
53 14 0.09
54 33 0.20
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (51 bp):
ATTCATATACTCACGATGACACATAGTCATCGGACCTTTAATCCATAAAGG
Found at i:25340217 original size:14 final size:15
Alignment explanation
Indices: 25340200--25340232 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
25340190 AAAATAAAAG
*
25340200 AAAATAAAGAAGT-A
1 AAAATAAAAAAGTGA
25340214 AAAATAAAAAAGTGA
1 AAAATAAAAAAGTGA
25340229 AAAA
1 AAAA
25340233 AAACCCTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAATAAAAAAGTGA
Found at i:25342835 original size:31 final size:32
Alignment explanation
Indices: 25342788--25342876 Score: 94
Period size: 31 Copynumber: 2.8 Consensus size: 32
25342778 TAACCAAAAT
* *
25342788 AACAACCAAAACAGCAACAA-AAATAATAGCAA
1 AACAACCAAAAAAGCAACAACAAA-AACAGCAA
25342820 AACAA-CAAAAAAGCAACAACAAAAACAGCAA
1 AACAACCAAAAAAGCAACAACAAAAACAGCAA
* *
25342851 AA-ATAGCAATAAAAACAACAACAAAA
1 AACA-ACCAA-AAAAGCAACAACAAAA
25342877 TAACAATATC
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
30 1 0.02
31 23 0.46
32 11 0.22
33 15 0.30
ACGTcount: A:0.70, C:0.20, G:0.06, T:0.04
Consensus pattern (32 bp):
AACAACCAAAAAAGCAACAACAAAAACAGCAA
Found at i:25342876 original size:12 final size:12
Alignment explanation
Indices: 25342783--25342876 Score: 54
Period size: 12 Copynumber: 8.2 Consensus size: 12
25342773 TCAAATAACC
* *
25342783 AAAATAACAACC
1 AAAACAACAACA
*
25342795 AAAACAGCAACA
1 AAAACAACAACA
* * *
25342807 AAAATAATAGC-
1 AAAACAACAACA
25342818 AAAACAACAA-A
1 AAAACAACAACA
*
25342829 AAAGCAACAAC-
1 AAAACAACAACA
*
25342840 -AAA-AACAGCA
1 AAAACAACAACA
* * *
25342850 AAAATAGCAATA
1 AAAACAACAACA
25342862 AAAACAACAACA
1 AAAACAACAACA
25342874 AAA
1 AAA
25342877 TAACAATATC
Statistics
Matches: 58, Mismatches: 19, Indels: 10
0.67 0.22 0.11
Matches are distributed among these distances:
9 5 0.09
10 2 0.03
11 19 0.33
12 32 0.55
ACGTcount: A:0.70, C:0.19, G:0.05, T:0.05
Consensus pattern (12 bp):
AAAACAACAACA
Found at i:25342883 original size:23 final size:23
Alignment explanation
Indices: 25342782--25342884 Score: 72
Period size: 23 Copynumber: 4.6 Consensus size: 23
25342772 TTCAAATAAC
** *
25342782 CAAAATAACAACCAAAACAGCAA
1 CAAAATAACAATAAAAACAACAA
*
25342805 C-AAA-AATAATAGCAAAACAACAA
1 CAAAATAACAATA--AAAACAACAA
* * *
25342828 -AAAAGCAACAACAAAAACAGC-A
1 CAAAA-TAACAATAAAAACAACAA
*
25342850 -AAAATAGCAATAAAAACAACAA
1 CAAAATAACAATAAAAACAACAA
25342872 CAAAATAACAATA
1 CAAAATAACAATA
25342885 TCAAAACAGT
Statistics
Matches: 61, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
21 16 0.26
22 9 0.15
23 31 0.51
25 5 0.08
ACGTcount: A:0.69, C:0.19, G:0.05, T:0.07
Consensus pattern (23 bp):
CAAAATAACAATAAAAACAACAA
Found at i:25342930 original size:21 final size:20
Alignment explanation
Indices: 25342884--25342932 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
25342874 AAATAACAAT
25342884 ATCAAAACAGTAAAAAAAGC
1 ATCAAAACAGTAAAAAAAGC
* *
25342904 ACCAAAACAGTAAAAAATGAC
1 ATCAAAACAGTAAAAAAAG-C
25342925 ATCAAAAC
1 ATCAAAAC
25342933 CGCAACCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.63, C:0.18, G:0.08, T:0.10
Consensus pattern (20 bp):
ATCAAAACAGTAAAAAAAGC
Found at i:25354609 original size:321 final size:321
Alignment explanation
Indices: 25354027--25354668 Score: 1194
Period size: 321 Copynumber: 2.0 Consensus size: 321
25354017 TTGGCTGATC
* * * *
25354027 CTTCCAAATATAGGAGTGTTGTTGGGAAGTTGCAGTATCTTTGTGCTACTCGACTTGATATCACG
1 CTTCCAAATACAGGAGTGTTGTTGAGAAGTTACAGTATCTTTGTGCTACTCGACCTGATATCACG
* *
25354092 TTCAGTGTTAATAGAGTGAGTCAATATATGAGTCAGCCAACTATTAGTCATTTGGGGTTACTCAA
66 TTCAGTGTTAATAGAGTGAGTCAACATATGAGTCAGCCAACTATTAGTCATTGGGGGTTACTCAA
25354157 GCATATTCTCAGGTAAAAGGTACTTGTGATCATGGTGTTTGTTTTAGTGCGTCAAAGAGTTGAGG
131 GCATATTCTCAGGTAAAAGGTACTTGTGATCATGGTGTTTGTTTTAGTGCGTCAAAGAGTTGAGG
*
25354222 TTAACTTCTTATTTTGATACTGATTGCGGAAATAGTGTTGAGGACAGGAGATCGACATCAGGTTA
196 TTAACTGCTTATTTTGATACTGATTGCGGAAATAGTGTTGAGGACAGGAGATCGACATCAGGTTA
25354287 TGTGGTGTTTTTGGGGGGTAATCCTGTTTCTTGGAGTTCGAAGAAGCAGTCAACTGTTGCT
261 TGTGGTGTTTTTGGGGGGTAATCCTGTTTCTTGGAGTTCGAAGAAGCAGTCAACTGTTGCT
25354348 CTTCCAAATACAGGAGTGTTGTTGAGAAGTTACAGTATCTTTGTGCTACTCGACCTGATATCACG
1 CTTCCAAATACAGGAGTGTTGTTGAGAAGTTACAGTATCTTTGTGCTACTCGACCTGATATCACG
25354413 TTCAGTGTTAATAGAGTGAGTCAACATATGAGTCAGCCAACTATTAGTCATTGGGGGTTACTCAA
66 TTCAGTGTTAATAGAGTGAGTCAACATATGAGTCAGCCAACTATTAGTCATTGGGGGTTACTCAA
25354478 GCATATTCTCAGGTAAAAGGTACTTGTGATCATGGTGTTTGTTTTAGTGCGTCAAAGAGTTGAGG
131 GCATATTCTCAGGTAAAAGGTACTTGTGATCATGGTGTTTGTTTTAGTGCGTCAAAGAGTTGAGG
* * *
25354543 TTAACTGCTTATTTTGATGCTGATTGTGGAAGTAGTGTTGAGGACAGGAGATCGACATCAGGTTA
196 TTAACTGCTTATTTTGATACTGATTGCGGAAATAGTGTTGAGGACAGGAGATCGACATCAGGTTA
25354608 TGTGGTGTTTTTGGGGGGTAATCCTGTTTCTTGGAGTTCGAAGAAGCAGTCAACTGTTGCT
261 TGTGGTGTTTTTGGGGGGTAATCCTGTTTCTTGGAGTTCGAAGAAGCAGTCAACTGTTGCT
25354669 TTGTCAACAA
Statistics
Matches: 311, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
321 311 1.00
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.35
Consensus pattern (321 bp):
CTTCCAAATACAGGAGTGTTGTTGAGAAGTTACAGTATCTTTGTGCTACTCGACCTGATATCACG
TTCAGTGTTAATAGAGTGAGTCAACATATGAGTCAGCCAACTATTAGTCATTGGGGGTTACTCAA
GCATATTCTCAGGTAAAAGGTACTTGTGATCATGGTGTTTGTTTTAGTGCGTCAAAGAGTTGAGG
TTAACTGCTTATTTTGATACTGATTGCGGAAATAGTGTTGAGGACAGGAGATCGACATCAGGTTA
TGTGGTGTTTTTGGGGGGTAATCCTGTTTCTTGGAGTTCGAAGAAGCAGTCAACTGTTGCT
Found at i:25359092 original size:17 final size:16
Alignment explanation
Indices: 25359068--25359101 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
25359058 ATTTTTTAGC
25359068 TTTTTTTATTTAAATT
1 TTTTTTTATTTAAATT
*
25359084 TTTTATTTATTTGAATT
1 TTTT-TTTATTTAAATT
25359101 T
1 T
25359102 CAAGGACACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTTTTATTTAAATT
Done.