Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008756.1 Hibiscus syriacus cultivar Beakdansim tig00111848_pilon, whole genome shotgun sequence
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: 4584045
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 21
Found at i:875192 original size:20 final size:20
Alignment explanation
Indices: 875169--875222 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
875159 GAAACTTAAA
875169 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
875189 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGAAAATGACT
*
875209 ATCGCAATGCGAAA
1 ATCGCAACGCGAAA
875223 TGAAAATCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:875281 original size:14 final size:14
Alignment explanation
Indices: 875225--875315 Score: 65
Period size: 14 Copynumber: 5.9 Consensus size: 14
875215 ATGCGAAATG
*
875225 AAAATCACAACGAC
1 AAAATCGCAACGAC
*
875239 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
875258 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
875272 AAAATTGCAATGCGAA
1 AAAATCGCAA--CGAC
875288 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
875304 AAAATCGCAACG
1 AAAATCGCAACG
875316 CGAAACACAA
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
14 29 0.48
15 1 0.02
16 10 0.16
17 2 0.03
18 9 0.15
19 10 0.16
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:875300 original size:32 final size:33
Alignment explanation
Indices: 875209--875320 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
875199 GGAAATGGCT
*
875209 ATCGCAATGCGAAATGAAAATCACAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
875242 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
875275 ATTGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
875307 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
875321 CACAAATCGC
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 28 0.37
33 47 0.63
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:875357 original size:19 final size:19
Alignment explanation
Indices: 875335--875442 Score: 67
Period size: 14 Copynumber: 6.2 Consensus size: 19
875325 AATCGCACTA
875335 CGATTTTCATTTCGCGTTG
1 CGATTTTCATTTCGCGTTG
*
875354 CGA-TTT--TGT--CGTTG
1 CGATTTTCATTTCGCGTTG
*
875368 CGA-TTTCATTTCGCATTG
1 CGATTTTCATTTCGCGTTG
*
875386 CGA-TTT--TGT--CGTTG
1 CGATTTTCATTTCGCGTTG
*
875400 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCGTTG
***
875419 CGATAGCCATTTCCGCGTTG
1 CGATTTTCATTT-CGCGTTG
875439 CGAT
1 CGAT
875443 AGTCATTTTC
Statistics
Matches: 68, Mismatches: 11, Indels: 19
0.69 0.11 0.19
Matches are distributed among these distances:
14 18 0.26
15 3 0.04
16 6 0.09
17 2 0.03
18 13 0.19
19 16 0.24
20 10 0.15
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.44
Consensus pattern (19 bp):
CGATTTTCATTTCGCGTTG
Found at i:875368 original size:14 final size:14
Alignment explanation
Indices: 875349--875406 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
875339 TTTCATTTCG
875349 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
875363 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
875379 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
875395 CGTTGCGATTTT
1 CGTTGCGATTTT
875407 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:875413 original size:33 final size:33
Alignment explanation
Indices: 875335--875422 Score: 160
Period size: 32 Copynumber: 2.7 Consensus size: 33
875325 AATCGCACTA
*
875335 CGATTTTCATTTCGCGTTGCGATTTTGTCGTTG
1 CGATTTTCATTTCGCATTGCGATTTTGTCGTTG
875368 CGA-TTTCATTTCGCATTGCGATTTTGTCGTTG
1 CGATTTTCATTTCGCATTGCGATTTTGTCGTTG
875400 CGATTTTCATTTCGCATTGCGAT
1 CGATTTTCATTTCGCATTGCGAT
875423 AGCCATTTCC
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
32 31 0.58
33 22 0.42
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
CGATTTTCATTTCGCATTGCGATTTTGTCGTTG
Found at i:875458 original size:20 final size:20
Alignment explanation
Indices: 875407--875450 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
875397 TTGCGATTTT
*
875407 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
875426 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
875446 CATTT
1 CATTT
875451 TCGTGTTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:875969 original size:18 final size:18
Alignment explanation
Indices: 875943--875987 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
875933 GTCGATCAGA
*
875943 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
875961 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
875979 TGATGGCTC
1 TGATGGCTC
875988 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:877251 original size:19 final size:19
Alignment explanation
Indices: 877227--877266 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
877217 TAGTTTCTGA
877227 AAATGAAAATCGCAACACG
1 AAATGAAAATCGCAACACG
** *
877246 AAATGACTATCGCAACGCG
1 AAATGAAAATCGCAACACG
877265 AA
1 AA
877267 TTTGACTATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.23, G:0.17, T:0.12
Consensus pattern (19 bp):
AAATGAAAATCGCAACACG
Found at i:877274 original size:20 final size:19
Alignment explanation
Indices: 877235--877282 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 19
877225 GAAAATGAAA
*
877235 ATCGCAACACGAAATGACT
1 ATCGCAACGCGAAATGACT
*
877254 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAA-ATGACT
877274 ATCGCAACG
1 ATCGCAACG
877283 AGAGAATCGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:877566 original size:22 final size:22
Alignment explanation
Indices: 877539--877581 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
877529 GATGGAGATA
*
877539 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
*
877561 GACGGATTTCATCGGAGATGG
1 GACGGATTTCACCGGAGATGG
877582 TGAGAGAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.42, T:0.21
Consensus pattern (22 bp):
GACGGATTTCACCGGAGATGGG
Found at i:877853 original size:20 final size:20
Alignment explanation
Indices: 877747--877881 Score: 130
Period size: 20 Copynumber: 6.7 Consensus size: 20
877737 CGCTTTGAAA
*
877747 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
877768 ATCGCATTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
877788 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
877808 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
877829 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
877849 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
877869 ATCGCATTGCGAT
1 ATCGCATTGCGAT
877882 TTTCCCAATT
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.05
20 65 0.68
21 24 0.25
22 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:877853 original size:61 final size:61
Alignment explanation
Indices: 877747--877884 Score: 204
Period size: 61 Copynumber: 2.3 Consensus size: 61
877737 CGCTTTGAAA
* * *
877747 ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * *
877808 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
877869 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
877885 CCCAATTCAC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 67 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:878729 original size:17 final size:17
Alignment explanation
Indices: 878707--878740 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
878697 ACTATTTAAC
878707 ATGCAATGCAACATGAA
1 ATGCAATGCAACATGAA
**
878724 ATGCAATTTAACATGAA
1 ATGCAATGCAACATGAA
878741 TTAAGTTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.24
Consensus pattern (17 bp):
ATGCAATGCAACATGAA
Found at i:878760 original size:144 final size:144
Alignment explanation
Indices: 878601--878888 Score: 576
Period size: 144 Copynumber: 2.0 Consensus size: 144
878591 AAGTTTTTGG
878601 GTTTTCATTTATTTTTTTAAAAGAAAATTAAAAATGGGCTAACATTCTAACATGGACTATTATTT
1 GTTTTCATTTATTTTTTTAAAAGAAAATTAAAAATGGGCTAACATTCTAACATGGACTATTATTT
878666 ATAATATGCAATGTAACTAATTAATTATTTAACTATTTAACATGCAATGCAACATGAAATGCAAT
66 ATAATATGCAATGTAACTAATTAATTATTTAACTATTTAACATGCAATGCAACATGAAATGCAAT
878731 TTAACATGAATTAA
131 TTAACATGAATTAA
878745 GTTTTCATTTATTTTTTTAAAAGAAAATTAAAAATGGGCTAACATTCTAACATGGACTATTATTT
1 GTTTTCATTTATTTTTTTAAAAGAAAATTAAAAATGGGCTAACATTCTAACATGGACTATTATTT
878810 ATAATATGCAATGTAACTAATTAATTATTTAACTATTTAACATGCAATGCAACATGAAATGCAAT
66 ATAATATGCAATGTAACTAATTAATTATTTAACTATTTAACATGCAATGCAACATGAAATGCAAT
878875 TTAACATGAATTAA
131 TTAACATGAATTAA
878889 TATGGAATGC
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
144 144 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (144 bp):
GTTTTCATTTATTTTTTTAAAAGAAAATTAAAAATGGGCTAACATTCTAACATGGACTATTATTT
ATAATATGCAATGTAACTAATTAATTATTTAACTATTTAACATGCAATGCAACATGAAATGCAAT
TTAACATGAATTAA
Found at i:878873 original size:17 final size:17
Alignment explanation
Indices: 878851--878884 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
878841 ACTATTTAAC
878851 ATGCAATGCAACATGAA
1 ATGCAATGCAACATGAA
**
878868 ATGCAATTTAACATGAA
1 ATGCAATGCAACATGAA
878885 TTAATATGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.24
Consensus pattern (17 bp):
ATGCAATGCAACATGAA
Found at i:879711 original size:44 final size:44
Alignment explanation
Indices: 879657--879774 Score: 148
Period size: 44 Copynumber: 2.7 Consensus size: 44
879647 AAAAAATTTC
** *
879657 ACTGATCCAACTCCTTCTGTGAAGGATCAAGTGAA-AGGATTATT
1 ACTGATCCAACTCCTTCTGTGAAGGATCAAGT-AACAGGACAAAT
* * *
879701 ACTGATCCAACTCCTTTTGTGAAGGATCGAGTAACATGACAAAT
1 ACTGATCCAACTCCTTCTGTGAAGGATCAAGTAACAGGACAAAT
* *
879745 ATTGATCCAACTCCTTCTGTGAAGAATCAA
1 ACTGATCCAACTCCTTCTGTGAAGGATCAA
879775 AGCAATTTTC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 2 0.03
44 61 0.97
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (44 bp):
ACTGATCCAACTCCTTCTGTGAAGGATCAAGTAACAGGACAAAT
Found at i:879856 original size:87 final size:88
Alignment explanation
Indices: 879747--879919 Score: 208
Period size: 87 Copynumber: 2.0 Consensus size: 88
879737 TGACAAATAT
* * *
879747 TGATCCAACTCCTTCTGTGAAGAATCAAAGC-AATTTTCTGATGCCAATATACCT-C-CTGTGAT
1 TGATCCAACTCATTCTGTGAAGAATCAAA-CAAAATGT-TGATGCCAATATACCTCCTCTGTGAT
*
879809 AGAATCGAATAAAATAAGATTACGC
64 AGAATCGAACAAAATAAGATTACGC
* * ** *
879834 TGATTCAACTCATTCTTTGAAGAATCAAACAAAATGTTGATGCTGATCTACCTCCTTCTGTGATA
1 TGATCCAACTCATTCTGTGAAGAATCAAACAAAATGTTGATGCCAATATACCTCC-TCTGTGATA
*
879899 GAATCGAGCAAAATAAGATTA
65 GAATCGAACAAAATAAGATTA
879920 TGCTAGTTTG
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
86 14 0.19
87 31 0.43
89 27 0.38
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (88 bp):
TGATCCAACTCATTCTGTGAAGAATCAAACAAAATGTTGATGCCAATATACCTCCTCTGTGATAG
AATCGAACAAAATAAGATTACGC
Found at i:891936 original size:2 final size:2
Alignment explanation
Indices: 891929--891982 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
891919 AAGAAGTCAC
891929 TA TA TA TA TA TA 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 TA TA TA TA TA TA
891971 TA TA TA TA TA TA
1 TA TA TA TA TA TA
891983 AAGGGAGTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:892645 original size:207 final size:211
Alignment explanation
Indices: 892287--892705 Score: 810
Period size: 207 Copynumber: 2.0 Consensus size: 211
892277 ATGTCACATC
892287 ACTTTTAAAATAGTTCCCCATTTGAAAATTCGTACAATTTTGTTTCATTTTATAAACCATTATAA
1 ACTTTTAAAATAGTTCCCCATTTGAAAATTCGTACAATTTTGTTTCATTTTATAAACCATTATAA
892352 TTTACTTATAATTAAAACATGCATTAAACTTAAATAAACAAATAAAAAGAGATGTTCCACAATTC
66 TTTACTTATAATTAAAACATGCATTAAACTTAAATAAACAAATAAAAAGAGATGTTCCACAATTC
892417 ACTGTTTTACAATATTCTATTTCAAAAGCTTTTCATAGCATTTTTACTTAACCTATTACATGCCA
131 ACTGTTTTACAATATTCTATTTCAAAAGCTTTTCATAGCATTTTTACTTAACCTATTACATGCCA
892482 ACT-AAATATATCAAA
196 ACTAAAATATATCAAA
892497 ACTTTTAAAATAGTTCCCCATTTGAAAATTCGTACAATTTTGTTTCATTTTATAAACCA-T-T-A
1 ACTTTTAAAATAGTTCCCCATTTGAAAATTCGTACAATTTTGTTTCATTTTATAAACCATTATAA
892559 TTTACTTATAATTAAAACATGCATTAAACTTAAATAAACAAATAAAAAGAGATGTTCCACAATTC
66 TTTACTTATAATTAAAACATGCATTAAACTTAAATAAACAAATAAAAAGAGATGTTCCACAATTC
892624 ACTGTTTTACAATATTCTATTTCAAAAGCTTTTCATAGCATTTTTACTTAACCTATTACATGCCA
131 ACTGTTTTACAATATTCTATTTCAAAAGCTTTTCATAGCATTTTTACTTAACCTATTACATGCCA
892689 ACTAAAATATATCAAA
196 ACTAAAATATATCAAA
892705 A
1 A
892706 GTAGACAGGT
Statistics
Matches: 208, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
207 134 0.64
208 14 0.07
209 1 0.00
210 59 0.28
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.38
Consensus pattern (211 bp):
ACTTTTAAAATAGTTCCCCATTTGAAAATTCGTACAATTTTGTTTCATTTTATAAACCATTATAA
TTTACTTATAATTAAAACATGCATTAAACTTAAATAAACAAATAAAAAGAGATGTTCCACAATTC
ACTGTTTTACAATATTCTATTTCAAAAGCTTTTCATAGCATTTTTACTTAACCTATTACATGCCA
ACTAAAATATATCAAA
Found at i:893121 original size:55 final size:55
Alignment explanation
Indices: 893016--893133 Score: 148
Period size: 55 Copynumber: 2.1 Consensus size: 55
893006 ATTATAGGTA
* * * * ** *
893016 ATTCATCAACTCATGATGAATTCTGTGGGTTTGCATATATATTGTGTGTACGGTT
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATATTGCCTGTACGATT
*
893071 TTTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTT-CCTGTACGATT
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATA-TTGCCTGTACGATT
893126 ATTCATCA
1 ATTCATCA
893134 TTCGTGGATT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 51 0.96
56 2 0.04
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (55 bp):
ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATATTGCCTGTACGATT
Found at i:893153 original size:42 final size:42
Alignment explanation
Indices: 893094--893175 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
893084 TGATGAATTC
*
893094 CGTGGATTTGCACACATAGTTCCTGTACGATTATTCATCATT
1 CGTGGATTTGCACACATAGTCCCTGTACGATTATTCATCATT
893136 CGTGGATTTGCACACATAGTCCCTGTACGATTATTCATCA
1 CGTGGATTTGCACACATAGTCCCTGTACGATTATTCATCA
893176 ACTCATGATG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.35
Consensus pattern (42 bp):
CGTGGATTTGCACACATAGTCCCTGTACGATTATTCATCATT
Found at i:901877 original size:13 final size:13
Alignment explanation
Indices: 901859--901883 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
901849 CTTCTTCTTC
901859 ATTTTTTTCTTTA
1 ATTTTTTTCTTTA
901872 ATTTTTTTCTTT
1 ATTTTTTTCTTT
901884 CCTTTATCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (13 bp):
ATTTTTTTCTTTA
Found at i:903540 original size:21 final size:21
Alignment explanation
Indices: 903516--903556 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
903506 GGAGTATCAA
*
903516 TACTACATTGAGCAGTATTGG
1 TACTACATTAAGCAGTATTGG
*
903537 TACTACCTTAAGCAGTATTG
1 TACTACATTAAGCAGTATTG
903557 ATATTACTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (21 bp):
TACTACATTAAGCAGTATTGG
Found at i:906508 original size:41 final size:42
Alignment explanation
Indices: 906435--906546 Score: 190
Period size: 41 Copynumber: 2.7 Consensus size: 42
906425 GTCCTCTTGA
* * *
906435 CGATTTATTCCAAATTCGTTACGATAGGCGAAGTTCGCGTTG
1 CGATTCATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTG
906477 CGATTCATTCCAAA-TCGTTGCGATAGTCGAAGTTCGCGTTG
1 CGATTCATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTG
906518 CGATTCATTCCAAATTCGTTGCGATAGTC
1 CGATTCATTCCAAATTCGTTGCGATAGTC
906547 CAAATATTGC
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
41 39 0.59
42 27 0.41
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.33
Consensus pattern (42 bp):
CGATTCATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTG
Found at i:906537 original size:21 final size:21
Alignment explanation
Indices: 906472--906542 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
906462 GCGAAGTTCG
906472 CGTTGCGATTCATTCCAAA-T
1 CGTTGCGATTCATTCCAAATT
* * *
906492 CGTTGCGA-T-AGTCGAAGTT
1 CGTTGCGATTCATTCCAAATT
906511 CGCGTTGCGATTCATTCCAAATT
1 --CGTTGCGATTCATTCCAAATT
906534 CGTTGCGAT
1 CGTTGCGAT
906543 AGTCCAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
18 5 0.12
19 2 0.05
20 8 0.20
21 17 0.43
22 1 0.03
23 7 0.17
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (21 bp):
CGTTGCGATTCATTCCAAATT
Found at i:906641 original size:6 final size:6
Alignment explanation
Indices: 906630--906670 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
906620 GACACGTATT
906630 ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG A-CACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
906671 AACGGCGGCG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
4 1 0.03
5 6 0.18
6 27 0.79
ACGTcount: A:0.34, C:0.49, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:907697 original size:25 final size:25
Alignment explanation
Indices: 907663--907710 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
907653 AAGTAAATTA
907663 TGTATTTAGTACCTAAACTATCATT
1 TGTATTTAGTACCTAAACTATCATT
907688 TGTATTTAGTACCTAAACTATCA
1 TGTATTTAGTACCTAAACTATCA
907711 CTTTTGATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (25 bp):
TGTATTTAGTACCTAAACTATCATT
Found at i:910611 original size:22 final size:22
Alignment explanation
Indices: 910585--910627 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
910575 AGTGTTTACT
910585 TTGTAAAT-AGAATAAAGTAGAA
1 TTGTAAATGA-AATAAAGTAGAA
*
910607 TTGTAAATGAAATAAATTAGA
1 TTGTAAATGAAATAAAGTAGA
910628 TTAAGTGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.30
Consensus pattern (22 bp):
TTGTAAATGAAATAAAGTAGAA
Found at i:910811 original size:22 final size:20
Alignment explanation
Indices: 910780--910853 Score: 57
Period size: 22 Copynumber: 3.6 Consensus size: 20
910770 CTTTCCTTTG
910780 TAAATAAAATAAACTTGATTT
1 TAAAT-AAATAAACTTGATTT
910801 CTAAATGAAAT-AAC-T--TTT
1 -TAAAT-AAATAAACTTGATTT
*
910819 TAAATAGAATAAACTAGATTT
1 TAAATA-AATAAACTTGATTT
910840 ATAAATTAAATAAA
1 -TAAA-TAAATAAA
910854 TTAAATTGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
16 1 0.02
17 8 0.19
18 6 0.14
20 1 0.02
21 6 0.14
22 19 0.44
23 2 0.05
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (20 bp):
TAAATAAATAAACTTGATTT
Found at i:910839 original size:39 final size:39
Alignment explanation
Indices: 910775--910852 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
910765 CCACCCTTTC
* *
910775 CTTTGTAAATAAAATAAACTTGATTTCTAAATGAAATAA
1 CTTTGTAAATAAAATAAACTAGATTTATAAATGAAATAA
* * *
910814 CTTTTTAAATAGAATAAACTAGATTTATAAATTAAATAA
1 CTTTGTAAATAAAATAAACTAGATTTATAAATGAAATAA
910853 ATTAAATTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.37
Consensus pattern (39 bp):
CTTTGTAAATAAAATAAACTAGATTTATAAATGAAATAA
Found at i:911514 original size:18 final size:19
Alignment explanation
Indices: 911479--911516 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
911469 CACGGAATGT
911479 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
911499 AAGATTACCA-GGGAATAA
1 AAGATTACCAGGGGAATAA
911517 GATTACTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:917221 original size:15 final size:15
Alignment explanation
Indices: 917195--917237 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
917185 AAAAAAAATT
*
917195 AAATACTGAAATTTA
1 AAATAATGAAATTTA
*
917210 AAGTAATGAAA-TTA
1 AAATAATGAAATTTA
*
917224 AAATATTGAAATTT
1 AAATAATGAAATTT
917238 GAAGCTCAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.35
Consensus pattern (15 bp):
AAATAATGAAATTTA
Found at i:917254 original size:29 final size:29
Alignment explanation
Indices: 917189--917254 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
917179 AATGCAAAAA
*
917189 AAAATTAAATACTGAAATTTAAAGTAATG
1 AAAATAAAATACTGAAATTTAAAGTAATG
* * * *
917218 AAATTAAAATATTGAAATTTGAAGCTCA-G
1 AAAATAAAATACTGAAATTTAAAG-TAATG
917247 AAAATAAA
1 AAAATAAA
917255 TTACAAAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 28 0.93
30 2 0.07
ACGTcount: A:0.56, C:0.05, G:0.11, T:0.29
Consensus pattern (29 bp):
AAAATAAAATACTGAAATTTAAAGTAATG
Found at i:921747 original size:3 final size:3
Alignment explanation
Indices: 921741--921795 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
921731 AAAATTATAT
*
921741 TAA TAA TAA TAA T-A TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
921788 TAA TAA TA
1 TAA TAA TA
921796 TTTAGGACGA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:922127 original size:111 final size:111
Alignment explanation
Indices: 921931--922263 Score: 540
Period size: 111 Copynumber: 3.0 Consensus size: 111
921921 GATAAGAGAT
* * * * * * * *
921931 TTGTTCCGCTGTCACTCAGGGAATATCAAATATTGCAAGAGATGGATCTATTCCGTTTCTTTTGA
1 TTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCGCTTCCTCTGA
* *
921996 GGGAATATCAGATCTAGGAAAGTTGATCCATTAAATCAGGGTAGAC
66 GGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCAGGGTAGAC
* *
922042 TTGTTCCGCTGTCACTCAGAGAATATCAAATCTTGAAAGAGAGGGATATGTTCCACTTCCTCTGA
1 TTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCGCTTCCTCTGA
922107 GGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCAGGGTAGAC
66 GGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCAGGGTAGAC
* *
922153 TTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCTGCTTCCTCTAA
1 TTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCGCTTCCTCTGA
922218 GGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCAGGGTAGAC
66 GGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCAGGGTAGAC
922264 ATGTGTTGAG
Statistics
Matches: 206, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
111 206 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (111 bp):
TTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCGCTTCCTCTGA
GGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCAGGGTAGAC
Found at i:925647 original size:20 final size:20
Alignment explanation
Indices: 925618--925655 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
925608 ACAGAACCCA
*
925618 GGGGGTATCGATTCCCCTGT
1 GGGGGGATCGATTCCCCTGT
*
925638 GGGGGGATCGGTTCCCCT
1 GGGGGGATCGATTCCCCT
925656 TCAAAGGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.26, G:0.39, T:0.26
Consensus pattern (20 bp):
GGGGGGATCGATTCCCCTGT
Found at i:931992 original size:111 final size:111
Alignment explanation
Indices: 931796--932321 Score: 845
Period size: 111 Copynumber: 4.7 Consensus size: 111
931786 GTTTTCAACA
** * *
931796 ACTTGTTCATCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCCACT
1 ACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCCTCT
*
931861 GAGGGAATATCAGATATGGGAAAGTTGATTCATTGAATCAGGATAG
66 GAGGGAATATCAGATATGGGAAAGTTGATTCATTGAATCAGGGTAG
**
931907 ACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCTGCTTCCTCT
1 ACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCCTCT
*
931972 GAGGGAATATCAGATTTGGGAAAGTTGATTCATTGAATCAGGGTAG
66 GAGGGAATATCAGATATGGGAAAGTTGATTCATTGAATCAGGGTAG
* * *
932018 ACTTGTTCCGCTGTCAGTCAGGGAATATAAAATCTTGAAAGAGAGGGATCTGTTCCACTTCATCT
1 ACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCCTCT
*
932083 GAGGGAATATCAGATCTGGGAAAGTTGATTCATTGAATCAGGGTAG
66 GAGGGAATATCAGATATGGGAAAGTTGATTCATTGAATCAGGGTAG
* *
932129 ACTTGTTCCGCTGTCACTCAAGGAATATCAAATCTTGAAAGAGAGGGATTTGTTCCACTTCCTCT
1 ACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCCTCT
*
932194 GAGGGAATATCAGATATGGGAAAGTTGATTCATTGAATCAGGGTTG
66 GAGGGAATATCAGATATGGGAAAGTTGATTCATTGAATCAGGGTAG
* * * * * *
932240 ACTTGTTCTGCTGTCACTCAGGGAATATCAAATCTTGAAAAAGAGTGATTTGTTTCACTTCTTCT
1 ACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCCTCT
*
932305 GAAGGGAAAATCAGATA
66 G-AGGGAATATCAGATA
932322 GATGGATTGC
Statistics
Matches: 388, Mismatches: 26, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
111 374 0.96
112 14 0.04
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (111 bp):
ACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCCTCT
GAGGGAATATCAGATATGGGAAAGTTGATTCATTGAATCAGGGTAG
Found at i:932463 original size:79 final size:78
Alignment explanation
Indices: 932322--932477 Score: 204
Period size: 79 Copynumber: 2.0 Consensus size: 78
932312 AAATCAGATA
* * * * * *
932322 GATGGATTGCTTCACTATTCTTCCTTGAAGGCTTAAAATGGCCCAGAGGACTTAATCGTCATGCT
1 GATGGATTGCTTCACTATACTTCCGTGAAGGCTTAAAATGGCCCAAAGGACTTAAGCATCATGAT
* *
932387 CGGAAGGCTTACT
66 CGAAAGACTTACT
* * *
932400 GATGGATTTGCTTCACTATACTTCGGTGAAGGCTTAATATGGCCCAAAGGATTTAAGCATCATGA
1 GATGGA-TTGCTTCACTATACTTCCGTGAAGGCTTAAAATGGCCCAAAGGACTTAAGCATCATGA
932465 TCGAAAGACTTAC
65 TCGAAAGACTTAC
932478 AAATAGATTT
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
78 6 0.09
79 60 0.91
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (78 bp):
GATGGATTGCTTCACTATACTTCCGTGAAGGCTTAAAATGGCCCAAAGGACTTAAGCATCATGAT
CGAAAGACTTACT
Found at i:932546 original size:34 final size:34
Alignment explanation
Indices: 932448--932550 Score: 125
Period size: 34 Copynumber: 3.0 Consensus size: 34
932438 ATGGCCCAAA
* * * * *
932448 GGATTTAAGCATCATGATCGAAAGACTTACAAAT
1 GGATTTGATCATCATGCTCGGAAGACTTACTAAT
* * * *
932482 AGATTTGATCATCATGCTCAGAGGACTTACTGAT
1 GGATTTGATCATCATGCTCGGAAGACTTACTAAT
932516 GGATTTGATCATCATGCTCGGAAGACTTACTAAT
1 GGATTTGATCATCATGCTCGGAAGACTTACTAAT
932550 G
1 G
932551 ACCCGAAGGA
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (34 bp):
GGATTTGATCATCATGCTCGGAAGACTTACTAAT
Found at i:933955 original size:5 final size:5
Alignment explanation
Indices: 933945--933969 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
933935 TCAGGCTCAC
933945 AATCA AATCA AATCA AATCA AATCA
1 AATCA AATCA AATCA AATCA AATCA
933970 TAAACATGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
AATCA
Found at i:939550 original size:2 final size:2
Alignment explanation
Indices: 939543--939572 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
939533 TATAGAATAA
*
939543 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
939573 TAAGTCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:941139 original size:21 final size:21
Alignment explanation
Indices: 941113--941155 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
941103 TGTGGTAGAG
941113 TTGCTGCCAGGTCTTGTAACC
1 TTGCTGCCAGGTCTTGTAACC
*
941134 TTGCTGCCTGGTCTTGTAACC
1 TTGCTGCCAGGTCTTGTAACC
941155 T
1 T
941156 GTAAAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.12, C:0.28, G:0.23, T:0.37
Consensus pattern (21 bp):
TTGCTGCCAGGTCTTGTAACC
Found at i:941198 original size:3 final size:3
Alignment explanation
Indices: 941173--941212 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
941163 ACAATTATAT
* *
941173 TAA TAA TTA TAA T-A TAA TTA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
941213 TTTAGGACGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:941199 original size:23 final size:23
Alignment explanation
Indices: 941165--941209 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
941155 TGTAAAAAAC
* *
941165 AATTATATTAATAATTATAATAT
1 AATTATAATAATAATAATAATAT
941188 AATTATAATAATAATAATAATA
1 AATTATAATAATAATAATAATA
941210 ATATTTAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AATTATAATAATAATAATAATAT
Found at i:941817 original size:17 final size:17
Alignment explanation
Indices: 941795--941830 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
941785 TATTGTCATG
941795 TGTTTTGATACAGTCAA
1 TGTTTTGATACAGTCAA
941812 TGTTTTGATACAGTCAA
1 TGTTTTGATACAGTCAA
941829 TG
1 TG
941831 CTCCGTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (17 bp):
TGTTTTGATACAGTCAA
Found at i:944008 original size:12 final size:12
Alignment explanation
Indices: 943991--944049 Score: 109
Period size: 12 Copynumber: 4.9 Consensus size: 12
943981 TTCATGAACA
943991 AGCTCGTTTATG
1 AGCTCGTTTATG
944003 AGCTCGTTTATG
1 AGCTCGTTTATG
*
944015 AGCTTGTTTATG
1 AGCTCGTTTATG
944027 AGCTCGTTTATG
1 AGCTCGTTTATG
944039 AGCTCGTTTAT
1 AGCTCGTTTAT
944050 CAACTTGTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.17, C:0.15, G:0.24, T:0.44
Consensus pattern (12 bp):
AGCTCGTTTATG
Found at i:944230 original size:30 final size:27
Alignment explanation
Indices: 944192--944263 Score: 76
Period size: 30 Copynumber: 2.6 Consensus size: 27
944182 GGATTAAAAT
944192 ATAT-ATTATATTTATTATTATATACTA
1 ATATCATTATATTTATTATTAT-TACTA
*
944219 TAGTATGATTAT-TATTATTATTATTACTA
1 -A-TATCATTATAT-TTATTATTATTACTA
*
944248 ATATCATTTTATTTAT
1 ATATCATTATATTTAT
944264 ATTTTATGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
27 11 0.29
28 3 0.08
29 9 0.24
30 15 0.39
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (27 bp):
ATATCATTATATTTATTATTATTACTA
Found at i:945800 original size:2 final size:2
Alignment explanation
Indices: 945793--945828 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
945783 TACGTGTATG
945793 AT AT 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 AT AT
945829 GTATTAACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:953038 original size:12 final size:11
Alignment explanation
Indices: 953014--953061 Score: 78
Period size: 11 Copynumber: 4.4 Consensus size: 11
953004 TGCTATTTTT
953014 AAAAAAAACAA
1 AAAAAAAACAA
**
953025 AAAAAAGGCAA
1 AAAAAAAACAA
953036 AAAAAAAACAA
1 AAAAAAAACAA
953047 AAAAAAAACAA
1 AAAAAAAACAA
953058 AAAA
1 AAAA
953062 GCCAAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:963086 original size:88 final size:90
Alignment explanation
Indices: 962980--963150 Score: 267
Period size: 88 Copynumber: 1.9 Consensus size: 90
962970 AAAGAGATGG
*
962980 ATCAACATTTCTAATGGAGAGTTCATAATGAGAAGAACTCATCCAA-CGAG-GAAGAAGTTCATA
1 ATCAACATTTCTAATGGAGAGTTCATAATGAGAAGAACTCATCCAAGAGAGAGAAGAAGTTCATA
*
963043 ATGAGAAGAACTTGTTCAACTTCGT
66 ACGAGAAGAACTTGTTCAACTTCGT
*
963068 ATCAACATTT-TCAATGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGAGAGAATAAGTTCA
1 ATCAACATTTCT-AATGGAGAGTTCATAATGAGAAGAACTCATCCAA-GAGAGAGAAGAAGTTCA
*
963132 TAACGAGAAGAGCTTGTTC
64 TAACGAGAAGAACTTGTTC
963151 GACCTATCAC
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
87 1 0.01
88 44 0.59
90 3 0.04
91 27 0.36
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (90 bp):
ATCAACATTTCTAATGGAGAGTTCATAATGAGAAGAACTCATCCAAGAGAGAGAAGAAGTTCATA
ACGAGAAGAACTTGTTCAACTTCGT
Found at i:963489 original size:328 final size:329
Alignment explanation
Indices: 962892--964051 Score: 1893
Period size: 328 Copynumber: 3.5 Consensus size: 329
962882 CAACATTTCC
**
962892 AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTTGTAATGAGAAGAACTTGTTCCTTTC
1 AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTC
*
962957 AAGTCCATCACAGAAAGAGATGGATCAACATTTCTAATGGAGAGTTCATAATGAGAAGAACTCAT
66 AAGTCCATCACAGAAAGAGATGGATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCAT
*
963022 CCAACGAG-GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTCGTATCAACATTTTCAATGGA
131 CCAACGAGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTCGCATCAACATTTTCAATGGA
* *
963086 GAGTTCATAATGAGAAGAACTCATCCAATGAGAGAGAATAAGTTCATAACGAGAAGAGCTTGTTC
196 GAGTTCATAATGAGAAGAACTCATCCAAAGAGAGAGAAGAAGTTCATAACGAGAAGAGCTTGTTC
*
963151 GACCTATCACTCGATTCACGGTATTTTGAATCAGTGACATCTCGCTTGAGGGATTGACATTTTCA
261 GACCTATCACTCGATTCACGGCATTTTGAATCAGTGACATCTCGCTTGAGGGATTGACATTTTCA
963216 GAAG
326 GAAG
*
963220 AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCGTAATGAGAAGAACTTGTTCCTTTC
1 AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTC
* *
963285 AAGTCCATCACAGAAAGAGATGGATTAACATTTCCAATGGAGAGTTCATAATGAAAAGAACTCAT
66 AAGTCCATCACAGAAAGAGATGGATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCAT
963350 CCAACGAG-GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTCGCATCAACATTTTCAATGGA
131 CCAACGAGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTCGCATCAACATTTTCAATGGA
* *
963414 GAGTTCATAATGAGAAGAACTCATCCAACGAGAGAGAAGAAGTTTATAACGAGAAGAGCTTGTTC
196 GAGTTCATAATGAGAAGAACTCATCCAAAGAGAGAGAAGAAGTTCATAACGAGAAGAGCTTGTTC
963479 GACCTATCACTCGATTCACGGCATTTTGAATCAGTGACATCTCGCTTGAGGGATTGACATTTTCA
261 GACCTATCACTCGATTCACGGCATTTTGAATCAGTGACATCTCGCTTGAGGGATTGACATTTTCA
963544 GAAG
326 GAAG
*
963548 AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAATAACTTGTTCCTTTC
1 AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTC
* * *
963613 AAGTCCATCACAGAAAGAGATGGATCAACATTTCCAATAGAGAGTTCATAATGAGAAGAACGCTT
66 AAGTCCATCACAGAAAGAGATGGATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCAT
* *
963678 CCAACGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTGCATCAACATTTTCAATA
131 CCAACGA-G-AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTCGCATCAACATTTTCAATG
* *
963743 GAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTG
194 GAGAGTTCATAATGAGAAGAACTCATCC-AAAGAGAGAGAAGAAGTTCATAACGAGAAGAGCTTG
* *
963808 TTCGACCTATCACTCGATTCACGACATTTCT-AATCAGTGAC-GCTTCG-TTAGAGGGATTGACA
258 TTCGACCTATCACTCGATTCACGGCATTT-TGAATCAGTGACATC-TCGCTT-GAGGGATTGACA
* *
963870 TTTCCAAAAG
320 TTTTCAGAAG
* * *
963880 AGTTCATAATGAGAAGAACTTGTCTTAAAGGAGAAAGTTCATAATGAGAAAAACTTGTTCCTTTC
1 AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTC
* * * * * *
963945 AAGTCCACCACAGAAATAGGT-GACTCAACATTTTCAATGAAGAGTTCATAAAGAGAAGAACTCA
66 AAGTCCATCACAGAAAGAGATGGA-TCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCA
964009 TCC-ACGAGAGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
130 TCCAAC--GAGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
964052 TCCAACGACG
Statistics
Matches: 784, Mismatches: 38, Indels: 17
0.93 0.05 0.02
Matches are distributed among these distances:
328 449 0.57
329 1 0.00
331 120 0.15
332 211 0.27
333 3 0.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (329 bp):
AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTC
AAGTCCATCACAGAAAGAGATGGATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCAT
CCAACGAGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTCGCATCAACATTTTCAATGGA
GAGTTCATAATGAGAAGAACTCATCCAAAGAGAGAGAAGAAGTTCATAACGAGAAGAGCTTGTTC
GACCTATCACTCGATTCACGGCATTTTGAATCAGTGACATCTCGCTTGAGGGATTGACATTTTCA
GAAG
Found at i:964215 original size:30 final size:30
Alignment explanation
Indices: 964177--964251 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 30
964167 GGATTAAAAT
964177 ATAT-ATTATATTTATTATT-ATA-TACTA
1 ATATCATTATATTTATTATTAATATTACTA
*
964204 TAGTATGATTAT-TATTATTATTAATATTACTA
1 -A-TATCATTATAT-TTATTATTAATATTACTA
*
964236 ATATCATTTTATTTAT
1 ATATCATTATATTTAT
964252 ATTTTATGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
28 1 0.03
29 4 0.10
30 24 0.62
31 5 0.13
32 5 0.13
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (30 bp):
ATATCATTATATTTATTATTAATATTACTA
Found at i:964761 original size:2 final size:2
Alignment explanation
Indices: 964754--964787 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
964744 AGGTATAGTA
964754 AT 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 AT
964788 TAAATAAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:966303 original size:2 final size:2
Alignment explanation
Indices: 966298--966324 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
966288 ATATATTAAC
966298 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 T
966325 TCAATTCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:967968 original size:35 final size:35
Alignment explanation
Indices: 967926--968005 Score: 142
Period size: 35 Copynumber: 2.3 Consensus size: 35
967916 TTATTCCTTT
967926 AACCAAACACGGTAATCTTACATTCCTACGAAACC
1 AACCAAACACGGTAATCTTACATTCCTACGAAACC
* *
967961 AACCAAACACGGTAATCTTACATTCCTGCTAAACC
1 AACCAAACACGGTAATCTTACATTCCTACGAAACC
967996 AACCAAACAC
1 AACCAAACAC
968006 AAAATACAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.41, C:0.33, G:0.07, T:0.19
Consensus pattern (35 bp):
AACCAAACACGGTAATCTTACATTCCTACGAAACC
Found at i:968093 original size:20 final size:20
Alignment explanation
Indices: 968036--968086 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
968026 ATCCTATTCC
968036 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
968056 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
968076 CTGGTAATCTT
1 CTGGTAATCTT
968087 ACATTCCGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCCCA
Found at i:971003 original size:82 final size:82
Alignment explanation
Indices: 970866--971030 Score: 330
Period size: 82 Copynumber: 2.0 Consensus size: 82
970856 TTGAAGTCAA
970866 GCATGTTCTTCATTTTCTTAATTCAAGGTACAATGCCTGTTTGTACTTGCAAAACTGAGAGCAAT
1 GCATGTTCTTCATTTTCTTAATTCAAGGTACAATGCCTGTTTGTACTTGCAAAACTGAGAGCAAT
970931 TTGAGGTTTTATTGTTT
66 TTGAGGTTTTATTGTTT
970948 GCATGTTCTTCATTTTCTTAATTCAAGGTACAATGCCTGTTTGTACTTGCAAAACTGAGAGCAAT
1 GCATGTTCTTCATTTTCTTAATTCAAGGTACAATGCCTGTTTGTACTTGCAAAACTGAGAGCAAT
971013 TTGAGGTTTTATTGTTT
66 TTGAGGTTTTATTGTTT
971030 G
1 G
971031 ATAATGCTAA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (82 bp):
GCATGTTCTTCATTTTCTTAATTCAAGGTACAATGCCTGTTTGTACTTGCAAAACTGAGAGCAAT
TTGAGGTTTTATTGTTT
Found at i:978807 original size:20 final size:20
Alignment explanation
Indices: 978782--978852 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
978772 AATCCCCTCA
*
978782 GTATCAGTACTGACCTCTAG
1 GTATCAATACTGACCTCTAG
*
978802 GTATCAGTACTGACCTCTAG
1 GTATCAATACTGACCTCTAG
**
978822 GTATCAATACTGATTTCTAG
1 GTATCAATACTGACCTCTAG
978842 GTATCAATACT
1 GTATCAATACT
978853 ACTGGCAAAT
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:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (20 bp):
GTATCAATACTGACCTCTAG
Found at i:978930 original size:22 final size:22
Alignment explanation
Indices: 978902--978979 Score: 147
Period size: 22 Copynumber: 3.5 Consensus size: 22
978892 ATACCTTGGT
978902 TGGGGTATCGATTCTCCTGATA
1 TGGGGTATCGATTCTCCTGATA
978924 TGGGGTATCGATTCTCCTGATA
1 TGGGGTATCGATTCTCCTGATA
*
978946 TGGGGTATCGATCCTCCTGATA
1 TGGGGTATCGATTCTCCTGATA
978968 TGGGGTATCGAT
1 TGGGGTATCGAT
978980 ATAAATTTTG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (22 bp):
TGGGGTATCGATTCTCCTGATA
Found at i:980117 original size:23 final size:23
Alignment explanation
Indices: 980091--980137 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
980081 GGATTAATTT
980091 AAGCCCACTCGGGTTAACTCGAA
1 AAGCCCACTCGGGTTAACTCGAA
*
980114 AAGCCCACTTGGGTTAACTCGAA
1 AAGCCCACTCGGGTTAACTCGAA
980137 A
1 A
980138 CTACTAACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (23 bp):
AAGCCCACTCGGGTTAACTCGAA
Found at i:986161 original size:5 final size:5
Alignment explanation
Indices: 986151--986189 Score: 60
Period size: 5 Copynumber: 7.4 Consensus size: 5
986141 ACACACACAT
986151 ATATA ATATA ATTAATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA A-T-ATA ATATA ATATA ATATA ATATA AT
986190 TATATAAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 26 0.81
6 2 0.06
7 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:986886 original size:200 final size:200
Alignment explanation
Indices: 986539--986945 Score: 780
Period size: 200 Copynumber: 2.0 Consensus size: 200
986529 AGATCAGACT
986539 CGAGAATATTTTGATCCACTTCACTGCTCTTCAGGGAAGAATGAATCAAACTTGATTTGCTTCGC
1 CGAGAATATTTTGATCCACTTCACTGCTCTTCAGGGAAGAATGAATCAAACTTGATTTGCTTCGC
*
986604 TGCTCCTCAGGAAGACCAAATATGAAAGTAGAAGAATATGTTCCACTTTTTCAAGTAGGTCAGGC
66 TGCTCCTCAGGAAGACCAAATATCAAAGTAGAAGAATATGTTCCACTTTTTCAAGTAGGTCAGGC
*
986669 TTGATCTGTTTCTCTATGCCCGATAATCTTTTTCAATTAATTTGCCTTTATCCTACATCTGTTGG
131 TTGATCTGTTCCTCTATGCCCGATAATCTTTTTCAATTAATTTGCCTTTATCCTACATCTGTTGG
986734 TCATG
196 TCATG
986739 CGAGAATATTTTGATCCACTTCACTGCTCTTCAGGGAAGAATGAATCAAACTTGATTTGCTTCGC
1 CGAGAATATTTTGATCCACTTCACTGCTCTTCAGGGAAGAATGAATCAAACTTGATTTGCTTCGC
*
986804 TGCTCCTCAGGAAGACCAAATCTCAAAGTAGAAGAATATGTTCCACTTTTTCAAGTAGGTCAGGC
66 TGCTCCTCAGGAAGACCAAATATCAAAGTAGAAGAATATGTTCCACTTTTTCAAGTAGGTCAGGC
986869 TTGATCTGTTCCTCTATGCCCGATAATCTTTTTCAATTAATTTGCCTTTATCCTACATCTGTTGG
131 TTGATCTGTTCCTCTATGCCCGATAATCTTTTTCAATTAATTTGCCTTTATCCTACATCTGTTGG
986934 TCATG
196 TCATG
986939 CGA-AATA
1 CGAGAATA
986946 CACATATGTT
Statistics
Matches: 204, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
199 4 0.02
200 200 0.98
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (200 bp):
CGAGAATATTTTGATCCACTTCACTGCTCTTCAGGGAAGAATGAATCAAACTTGATTTGCTTCGC
TGCTCCTCAGGAAGACCAAATATCAAAGTAGAAGAATATGTTCCACTTTTTCAAGTAGGTCAGGC
TTGATCTGTTCCTCTATGCCCGATAATCTTTTTCAATTAATTTGCCTTTATCCTACATCTGTTGG
TCATG
Found at i:987043 original size:32 final size:30
Alignment explanation
Indices: 986996--987078 Score: 89
Period size: 32 Copynumber: 2.8 Consensus size: 30
986986 TTATTTAATT
* *
986996 TATTTTTCTTCATTTTTTATTTTTTCTTTC
1 TATTTTTCTTCATTTTTCATTTTCTCTTTC
987026 TATTTTTCATTTCATTTTTCATTTTCTC-TTC
1 TATTTTTC--TTCATTTTTCATTTTCTCTTTC
* * *
987057 T-TTTCTCTTCCTTTTTCCTTTT
1 TATTTTTCTTCATTTTTCATTTT
987079 TTTTTCTCTT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
28 13 0.28
30 13 0.28
31 4 0.09
32 16 0.35
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.72
Consensus pattern (30 bp):
TATTTTTCTTCATTTTTCATTTTCTCTTTC
Found at i:987051 original size:13 final size:13
Alignment explanation
Indices: 987016--987049 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
987006 CATTTTTTAT
987016 TTTTTC-TTTCTA
1 TTTTTCATTTCTA
987028 TTTTTCATTTC-A
1 TTTTTCATTTCTA
987040 TTTTTCATTT
1 TTTTTCATTT
987050 TCTCTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTCATTTCTA
Found at i:987663 original size:259 final size:258
Alignment explanation
Indices: 987149--988107 Score: 1278
Period size: 259 Copynumber: 3.7 Consensus size: 258
987139 TTTTTAAAGA
* * * * * *
987149 ATTAAATGAGACACTTTGAAAATCACTTTCTCATTCTCTTTTAAA-TACCATGTGGAAGCATCTT
1 ATTAAATGAGAAACTTTGAAAATCGCTTTCTCA-T-T-TTTCAAATTATCATATGAAAGCATC-T
* * * * * *
987213 GTCGAAAGGTCTTATATATAGCCCGAAGGACTTATCATCTTGCTCGAAAGACAAACAAATGACCC
62 ATCCAAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTAACAGATGACCC
* * * *
987278 GAAGGATTTAATCATCATTCTCGAAAGACTTACTGATGGCCCAAAGGACTTATCAATTTTGAAAA
127 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAACAATTTTGGAAA
* *
987343 TAGTTTACTAGATAAGAAACTTTGGAAATCAATTTCTTACTTTTCAAAAATTTCATTTTCTGAAA
192 TAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTGAAA
987408 AT
257 AT
* * *
987410 ATTAGATGAGAAACTTTGAAAACCGCTTTCTCATTTTTCAAATTATCATATTAAAGCATCCTATC
1 ATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTATCATATGAAAGCAT-CTATC
* * * *
987475 CAAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTTCTCGAAAGACTAATAGATGACTCGAT
65 CAAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTAACAGATGACCCGAA
* * *
987540 GGATTTAATCATCATACTCGAAAGACTTACTGATGGGCCGAAGGACTTACCAATTTTGGAAATAG
130 GGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAACAATTTTGGAAATAG
* *
987605 TTTACTAGGGAAGAAACTTTGGAAATCACTTTCTTAGTTTTCAAAGAA-TTCATTTTCTGAAAAT
195 TTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAA-AATTTCATTTTCTGAAAAT
* * * *
987669 ATTAAATGAGAAACTTTGAAAATTGCCTTCTCATTTTGCAAATTATCATATGAAAGCATAT-TGC
1 ATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTATCATATGAAAGCATCTAT--
* * * * *
987733 CCAAAGGTCTTATAAATGGCCCGAATGACTTATCATCTTGCTCGAAAGACTGACAGTTGGCCCGA
64 CCAAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTAACAGATGACCCGA
* **
987798 AGGATTTAATCATCATGCTTGAAAGACTTACTGATTGGCTTGAAGGACTTAACAATTTTGGAAAT
129 AGGATTTAATCATCATGCTCGAAAGACTTACTGA-TGGCCCGAAGGACTTAACAATTTTGGAAAT
**
987863 AGTTTACTAGGTAAGAAACTTTGGAAATTTCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAA
193 AGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAA
987928 T
258 T
* * * * * *
987929 ACTAAATGAGAAACTTTGAAAGTCACTTTCTTATTTTTCAAATTAT-ATATGAAAGTATCTTTCC
1 ATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTATCATATGAAAGCATCTATCC
** * *
987993 TAAAGGTCTTATAGATGGCATGAATGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAA
66 -AAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTAACAGATGACCCGAA
* * * *
988058 GGATTTAATTATCATGCTCAAAAGACTTACTGATGACCCGAAGGATTTAA
130 GGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAA
988108 TTATCATGCT
Statistics
Matches: 614, Mismatches: 75, Indels: 21
0.86 0.11 0.03
Matches are distributed among these distances:
257 1 0.00
258 22 0.04
259 433 0.71
260 129 0.21
261 29 0.05
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33
Consensus pattern (258 bp):
ATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTATCATATGAAAGCATCTATCC
AAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTAACAGATGACCCGAAG
GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAACAATTTTGGAAATAGT
TTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAT
Found at i:988082 original size:42 final size:42
Alignment explanation
Indices: 988030--988144 Score: 185
Period size: 42 Copynumber: 2.7 Consensus size: 42
988020 CTTATCATCT
* * *
988030 TGCTCGAAAGACTGACAGATGACCCGAAGGATTTAATTATCA
1 TGCTCAAAAGACTTACTGATGACCCGAAGGATTTAATTATCA
988072 TGCTCAAAAGACTTACTGATGACCCGAAGGATTTAATTATCA
1 TGCTCAAAAGACTTACTGATGACCCGAAGGATTTAATTATCA
* *
988114 TGCTCAAAAGACTTACTGATGGCCCAAAGGA
1 TGCTCAAAAGACTTACTGATGACCCGAAGGA
988145 CTTACTAGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (42 bp):
TGCTCAAAAGACTTACTGATGACCCGAAGGATTTAATTATCA
Found at i:990403 original size:6 final size:6
Alignment explanation
Indices: 990394--990435 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
990384 CTCTTTCTCT
990394 TTTTCC TTTTCC TTTTCC TTTT-C -TTT-C TTTTCC -TTTCC TTTT
1 TTTTCC TTTTCC TTTTCC TTTTCC TTTTCC TTTTCC TTTTCC TTTT
990436 TGTTGTTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 4 0.12
5 9 0.27
6 20 0.61
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCC
Found at i:990403 original size:27 final size:26
Alignment explanation
Indices: 990355--990435 Score: 71
Period size: 26 Copynumber: 3.1 Consensus size: 26
990345 ACTTGATTTG
*
990355 TTCTCTTTCTTCTTTCTT--TTTTTCTCT
1 TTCTCTTTC-TCTTT-TTCCTTTTCCT-T
990382 TTCTCTTTCTCTTTTTCCTTTTCCTT
1 TTCTCTTTCTCTTTTTCCTTTTCCTT
*
990408 TTC-CTTTTCTTTCTTTTCC-TTTCCTT
1 TTCTC-TTTCTCT-TTTTCCTTTTCCTT
990434 TT
1 TT
990436 TGTTGTTTTC
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
25 3 0.06
26 24 0.50
27 21 0.44
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (26 bp):
TTCTCTTTCTCTTTTTCCTTTTCCTT
Found at i:990436 original size:21 final size:21
Alignment explanation
Indices: 990359--990436 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 21
990349 GATTTGTTCT
990359 CTTT-CTTCTTTCTTT-TTTTC
1 CTTTCCTT-TTTCTTTCTTTTC
*
990379 TCTTTCTCTTTCTCTTTTTCCTTTTC
1 -CTTTC-CTTT-T-TCTTT-CTTTTC
990405 CTTTTCC-TTTTCTTTCTTTTC
1 C-TTTCCTTTTTCTTTCTTTTC
990426 CTTTCCTTTTT
1 CTTTCCTTTTT
990437 GTTGTTTTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
20 5 0.11
21 15 0.32
22 5 0.11
23 5 0.11
24 6 0.13
25 2 0.04
26 9 0.19
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (21 bp):
CTTTCCTTTTTCTTTCTTTTC
Found at i:990450 original size:21 final size:20
Alignment explanation
Indices: 990355--990450 Score: 83
Period size: 20 Copynumber: 4.7 Consensus size: 20
990345 ACTTGATTTG
990355 TTCTCTTTCTTCTTT-CTTTTT
1 TTCT-TTTC-TCTTTCCTTTTT
990376 TTCTCTTTCTCTTT-CTCTTTT
1 TTCT-TTTCTCTTTCCT-TTTT
*
990397 TCCTTTTC-CTTTTCCTTTTCT
1 TTCTTTTCTC-TTTCCTTTT-T
990418 TTCTTTTC-CTTTCCTTTTT
1 TTCTTTTCTCTTTCCTTTTT
*
990437 GTTGTTTTCTCTTT
1 -TTCTTTTCTCTTT
990451 TTTTTTCGAA
Statistics
Matches: 66, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
19 2 0.03
20 33 0.50
21 31 0.47
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (20 bp):
TTCTTTTCTCTTTCCTTTTT
Found at i:996042 original size:8 final size:7
Alignment explanation
Indices: 996030--996067 Score: 51
Period size: 8 Copynumber: 5.3 Consensus size: 7
996020 AAAAAAAAAA
996030 AACACAC
1 AACACAC
996037 -ACACAC
1 AACACAC
996043 ACACACAC
1 A-ACACAC
996051 AATCACAC
1 AA-CACAC
996059 AACACAC
1 AACACAC
996066 AA
1 AA
996068 ACTCATTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 6 0.21
7 8 0.29
8 14 0.50
ACGTcount: A:0.55, C:0.42, G:0.00, T:0.03
Consensus pattern (7 bp):
AACACAC
Found at i:1003734 original size:20 final size:20
Alignment explanation
Indices: 1003709--1003759 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
1003699 CTATGGAGAG
1003709 TATCGATAGC-CAACCCATGA
1 TATCGATA-CTCAACCCATGA
*
1003729 TATCGACACTCAACCCATGA
1 TATCGATACTCAACCCATGA
1003749 TATCGATACTC
1 TATCGATACTC
1003760 TATTAAGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.33, C:0.31, G:0.12, T:0.24
Consensus pattern (20 bp):
TATCGATACTCAACCCATGA
Found at i:1011805 original size:6 final size:6
Alignment explanation
Indices: 1011804--1011848 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
1011794 AAAAAAGGAA
1011804 AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAA
1 AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAA
1011849 GAGATTCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:1012616 original size:24 final size:24
Alignment explanation
Indices: 1012580--1012640 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
1012570 ATTTTATATT
*
1012580 TTTTAAAATATAATTAATAT-AAA
1 TTTTAAAATATAATAAATATGAAA
*
1012603 TTTTAAAATAATAATAAATTTGAAA
1 TTTTAAAAT-ATAATAAATATGAAA
*
1012628 TTTAAAAAT-TAAT
1 TTTTAAAATATAAT
1012641 TTCACCAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 13 0.39
24 9 0.27
25 11 0.33
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TTTTAAAATATAATAAATATGAAA
Found at i:1012910 original size:24 final size:24
Alignment explanation
Indices: 1012883--1012936 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
1012873 TTGGATGGGT
*
1012883 ATTCTGCTTACTTACACTCCTTAA
1 ATTCTCCTTACTTACACTCCTTAA
1012907 ATTCTCCTTACTTACACTCCTTAA
1 ATTCTCCTTACTTACACTCCTTAA
1012931 ATTCTC
1 ATTCTC
1012937 AAGTTTGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.43
Consensus pattern (24 bp):
ATTCTCCTTACTTACACTCCTTAA
Found at i:1014136 original size:24 final size:24
Alignment explanation
Indices: 1014104--1014156 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 24
1014094 TGAAAACATT
1014104 TTTTGAAAA-ATATATAATATATAG
1 TTTTGAAAACATATATAATAT-TAG
*
1014128 TTTTGAAAAGCGTATATAATATTAG
1 TTTTGAAAA-CATATATAATATTAG
1014153 TTTT
1 TTTT
1014157 TCCAAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 9 0.35
25 7 0.27
26 10 0.38
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (24 bp):
TTTTGAAAACATATATAATATTAG
Found at i:1014136 original size:37 final size:37
Alignment explanation
Indices: 1014041--1014136 Score: 133
Period size: 37 Copynumber: 2.6 Consensus size: 37
1014031 CATATAAAGC
* *
1014041 ATATGATATATAGTTTTG-AAACATTTTTTTTGAGAAT
1 ATATAATATATAGTTTTGAAAACA-TTTTTTTGAAAAT
*
1014078 ATATAATATATAGTATTGAAAACA-TTTTTTGAAAAAT
1 ATATAATATATAGTTTTGAAAACATTTTTTTG-AAAAT
1014115 ATATAATATATAGTTTTGAAAA
1 ATATAATATATAGTTTTGAAAA
1014137 GCGTATATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
36 7 0.13
37 41 0.77
38 5 0.09
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (37 bp):
ATATAATATATAGTTTTGAAAACATTTTTTTGAAAAT
Found at i:1022047 original size:22 final size:22
Alignment explanation
Indices: 1022008--1022064 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
1021998 TTCTTCCTAC
* **
1022008 TTTATTTCATTTCCTTTT-GAA
1 TTTATTTCCTTTTATTTTGGAA
*
1022029 TTTAATTTTCTTTTATTTTGGAA
1 TTT-ATTTCCTTTTATTTTGGAA
1022052 TTTATTTCCTTTT
1 TTTATTTCCTTTT
1022065 GAATTTAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 3 0.10
22 20 0.69
23 6 0.21
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.67
Consensus pattern (22 bp):
TTTATTTCCTTTTATTTTGGAA
Found at i:1027301 original size:91 final size:91
Alignment explanation
Indices: 1027146--1027477 Score: 319
Period size: 91 Copynumber: 3.8 Consensus size: 91
1027136 TAAACAAGTA
1027146 AAGGTTGAACAAGTTCTTCTCATTATGAACTTGTTT-TCCCTCATTGCATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTT-TTTCTCCCTCATTGCATGAGTTCTTCTCATTA
**
1027210 TGAACTCTCCACTAGAAATGTTGAACC
65 TGAACTCTCCACTAGAAATACTGAACC
** * *
1027237 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTGGTTGGATGATTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCATTGCATGAGTTCTTCTCATTAT
** * * *
1027302 GAACTCTCCGTTCGAAATACTGAGCT
66 GAACTCTCCACTAGAAATACTGAACC
* * ** *
1027328 AATGTCGAACAAGTTCTTCTCATTACAAACTTCTTCT--C-C----C-T---TTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCATTGCATGAGTTCTTCTCATTAT
** * * *
1027382 GAACTCTCCGTTCGAAATACTGAGCT
66 GAACTCTCCACTAGAAATACTGAACC
* * ** * * *
1027408 AATGTCGAACAAGTTCTTCTCATTACAAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAC
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCATTGCATGAGTTCTTCTCATTAT
1027473 GAACT
66 GAACT
1027478 TCTTCTCCCT
Statistics
Matches: 209, Mismatches: 20, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
80 76 0.36
82 1 0.00
83 2 0.01
88 1 0.00
89 1 0.00
90 3 0.01
91 125 0.60
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (91 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCATTGCATGAGTTCTTCTCATTAT
GAACTCTCCACTAGAAATACTGAACC
Found at i:1027421 original size:80 final size:80
Alignment explanation
Indices: 1027288--1027448 Score: 322
Period size: 80 Copynumber: 2.0 Consensus size: 80
1027278 GGTTGGATGA
1027288 TTTCTTCTCATTATGAACTCTCCGTTCGAAATACTGAGCTAATGTCGAACAAGTTCTTCTCATTA
1 TTTCTTCTCATTATGAACTCTCCGTTCGAAATACTGAGCTAATGTCGAACAAGTTCTTCTCATTA
1027353 CAAACTTCTTCTCCC
66 CAAACTTCTTCTCCC
1027368 TTTCTTCTCATTATGAACTCTCCGTTCGAAATACTGAGCTAATGTCGAACAAGTTCTTCTCATTA
1 TTTCTTCTCATTATGAACTCTCCGTTCGAAATACTGAGCTAATGTCGAACAAGTTCTTCTCATTA
1027433 CAAACTTCTTCTCCC
66 CAAACTTCTTCTCCC
1027448 T
1 T
1027449 CATTGGATGA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (80 bp):
TTTCTTCTCATTATGAACTCTCCGTTCGAAATACTGAGCTAATGTCGAACAAGTTCTTCTCATTA
CAAACTTCTTCTCCC
Found at i:1027465 original size:22 final size:22
Alignment explanation
Indices: 1027438--1027506 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
1027428 CATTACAAAC
1027438 TTCTTCTCCCTCATTGGATGAG
1 TTCTTCTCCCTCATTGGATGAG
* *
1027460 TTC-T-T--CTCATT--ACGAAC
1 TTCTTCTCCCTCATTGGATG-AG
1027477 TTCTTCTCCCTCATTGGATGAG
1 TTCTTCTCCCTCATTGGATGAG
1027499 TTCTTCTC
1 TTCTTCTC
1027507 ATTATGAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
16 2 0.06
17 4 0.11
18 7 0.19
19 1 0.03
20 1 0.03
21 7 0.19
22 12 0.33
23 2 0.06
ACGTcount: A:0.14, C:0.29, G:0.13, T:0.43
Consensus pattern (22 bp):
TTCTTCTCCCTCATTGGATGAG
Found at i:1027478 original size:39 final size:39
Alignment explanation
Indices: 1027419--1027516 Score: 178
Period size: 39 Copynumber: 2.5 Consensus size: 39
1027409 ATGTCGAACA
*
1027419 AGTTCTTCTCATTACAAACTTCTTCTCCCTCATTGGATG
1 AGTTCTTCTCATTACGAACTTCTTCTCCCTCATTGGATG
1027458 AGTTCTTCTCATTACGAACTTCTTCTCCCTCATTGGATG
1 AGTTCTTCTCATTACGAACTTCTTCTCCCTCATTGGATG
*
1027497 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTACGAACT
1027517 CTCCATTGGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.20, C:0.27, G:0.11, T:0.42
Consensus pattern (39 bp):
AGTTCTTCTCATTACGAACTTCTTCTCCCTCATTGGATG
Found at i:1027529 original size:130 final size:130
Alignment explanation
Indices: 1027369--1027607 Score: 379
Period size: 130 Copynumber: 1.8 Consensus size: 130
1027359 TCTTCTCCCT
* * *
1027369 TTCTTCTCATTATGAACTCTCCGTTCGAAATACTGAGCTAATGTCGAACAAGTTCTTCTCATTAC
1 TTCTTCTCATTATGAACTCTCCATTCGAAATACTGAGCCAAGGTCGAACAAGTTCTTCTCATTAC
*
1027434 AAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTACGAACTTCTTCTCCCTCATTGGATGAG
66 AAACTTCTTCTCCCTCATTGGATAAGTTCTTCTCATTACGAACTTCTTCTCCCTCATTGGATGAG
* * * *
1027499 TTCTTCTCATTATGAACTCTCCATTGGAAATATTGAGCCAAGGTTGAACAAGTTCTTCTCATTAT
1 TTCTTCTCATTATGAACTCTCCATTCGAAATACTGAGCCAAGGTCGAACAAGTTCTTCTCATTAC
* * *
1027564 GAACTTCTTCTCCCTCGTTGGATAAGTTCTTCTCATTATGAACT
66 AAACTTCTTCTCCCTCATTGGATAAGTTCTTCTCATTACGAACT
1027608 CTCCGTTGGA
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
130 98 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.38
Consensus pattern (130 bp):
TTCTTCTCATTATGAACTCTCCATTCGAAATACTGAGCCAAGGTCGAACAAGTTCTTCTCATTAC
AAACTTCTTCTCCCTCATTGGATAAGTTCTTCTCATTACGAACTTCTTCTCCCTCATTGGATGAG
Found at i:1027550 original size:210 final size:213
Alignment explanation
Indices: 1027247--1027691 Score: 592
Period size: 210 Copynumber: 2.1 Consensus size: 213
1027237 AAGGTTGAAC
* * ** * *
1027247 AAGTTCTTCTCATTATGAACTTTTTCTCCCTGGTTGGATGATTTCTTCTCATTATGAACTCTCCG
1 AAGTTCTTCTCATTACGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCA
* *
1027312 TTCGAAATACTGAGCTAATGTCGAACAAGTTCTTCTCATTACAAACTTCTTCT-CC-C-T-TTCT
66 TTCGAAATACTGAGCCAAGGTCGAACAAGTTCTTCTCATTACAAACTTCTTCTCCCTCGTATTCT
* *
1027373 TCTCATTATGAACTCTCCGTTCGAAATACTGAGCTAATGTCGAACAAGTTCTTCTCATTACAAAC
131 TCTCATTATGAACTCTCCGTTCGAAATACTGA-CTAAGGTCGAACAAGTTATTCTCATTACAAAC
*
1027438 TTCTTCTCCCTCATTGGAT
195 TTCTTCTCCCTCATTAGAT
*
1027457 GAGTTCTTCTCATTACGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCA
1 AAGTTCTTCTCATTACGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCA
* * * **
1027522 TTGGAAATATTGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGAT
66 TTCGAAATACTGAGCCAAGGTCGAACAAGTTCTTCTCATTACAAACTTCTTCTCCCTC----G-T
* *
1027587 AAGTTCTTCTCATTATGAACTCTCCGTTGGAAATACTGACTAAGGTTGAACAAGTTATTCTCATT
126 -A-TTCTTCTCATTATGAACTCTCCGTTCGAAATACTGACTAAGGTCGAACAAGTTATTCTCATT
** *
1027652 ATGAACTTCTTCTCTCTCATTAGAT
189 ACAAACTTCTTCTCCCTCATTAGAT
1027677 AAGTTCTTCTCATTA
1 AAGTTCTTCTCATTA
1027692 TAAACTCCCC
Statistics
Matches: 201, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
210 104 0.52
211 2 0.01
212 1 0.00
218 1 0.00
220 58 0.29
221 35 0.17
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (213 bp):
AAGTTCTTCTCATTACGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCA
TTCGAAATACTGAGCCAAGGTCGAACAAGTTCTTCTCATTACAAACTTCTTCTCCCTCGTATTCT
TCTCATTATGAACTCTCCGTTCGAAATACTGACTAAGGTCGAACAAGTTATTCTCATTACAAACT
TCTTCTCCCTCATTAGAT
Found at i:1027560 original size:91 final size:90
Alignment explanation
Indices: 1027458--1028254 Score: 1044
Period size: 91 Copynumber: 8.8 Consensus size: 90
1027448 TCATTGGATG
*
1027458 AGTTCTTCTCATTACGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAT
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAT
**
1027523 TGGAAATATTGAGCCAAGGTTGAACA
66 TGGAAATGCTGA-CCAAGGTTGAACA
* * *
1027549 AGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATAAGTTCTTCTCATTATGAACTCTCCGT
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAT
* *
1027614 TGGAAATACTGACTAAGGTTGAACA
66 TGGAAATGCTGACCAAGGTTGAACA
* * * * * * *
1027639 AGTTATTCTCATTATGAACTTCTTCTCTCTCATTAGATAAGTTCTTCTCATTATAAACTCCCCGT
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAT
* *
1027704 TAGAAATGCTGACTAAGGTTGAACA
66 TGGAAATGCTGACCAAGGTTGAACA
* * * *
1027729 AGTTCTTGTCATTACGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCTAC
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAT
*
1027794 TGGAAATGTTGAGCCAAGGTTGAACA
66 TGGAAATGCTGA-CCAAGGTTGAACA
* * * *
1027820 AGTTCTTCTCATTATAAACTTCTTCTCCCTCGTTGGATAAGTTCTTCTCATTATGAACTCTCTGA
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTC-CA
*
1027885 -TGGAAATGCTGACTAAGGTTGAACA
65 TTGGAAATGCTGACCAAGGTTGAACA
* * * * * *
1027910 ACTTCTTATCATTATGAACTT-TCTCTCCCTCATTGGATAAGTTATTCTCATTATCAACTCTCCG
1 AGTTCTTCTCATTATGAACTTCT-TCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCA
* *
1027974 TTGGAAATGCAGACTAAGGTTGAACA
65 TTGGAAATGCTGACCAAGGTTGAACA
* * * *
1028000 AGATCTTCTCATTATGAACTTCTTCTCCCTTATTGGATGAGTTCTTCCCATTATGAACTCTCCAA
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAT
*
1028065 TGGAAAT-CTTTAACCAAGGTTGAACA
66 TGGAAATGC--TGACCAAGGTTGAACA
* * ** *
1028091 AGTTCTTCTCATTATGAAATTATTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACTCTCCAC
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAT
*
1028156 TAGAAAT-CTTGAACCAAGGTTGAACA
66 TGGAAATGC-TG-ACCAAGGTTGAACA
* * * *
1028182 AGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAATTCTTCTCATTATGAACTCTTCAC
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAT
1028247 TGGAAATG
66 TGGAAATG
1028255 TTGTTCGGTT
Statistics
Matches: 625, Mismatches: 72, Indels: 17
0.88 0.10 0.02
Matches are distributed among these distances:
89 2 0.00
90 310 0.50
91 312 0.50
92 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (90 bp):
AGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAT
TGGAAATGCTGACCAAGGTTGAACA
Found at i:1027678 original size:90 final size:90
Alignment explanation
Indices: 1027458--1028254 Score: 1037
Period size: 90 Copynumber: 8.8 Consensus size: 90
1027448 TCATTGGATG
* *
1027458 AGTTCTTCTCATTACGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAT
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATAAGTTCTTCTCATTATGAACTCTCCAT
**
1027523 TGGAAATATTGAGCCAAGGTTGAACA
66 TGGAAATGCTGA-CCAAGGTTGAACA
* *
1027549 AGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATAAGTTCTTCTCATTATGAACTCTCCGT
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATAAGTTCTTCTCATTATGAACTCTCCAT
* *
1027614 TGGAAATACTGACTAAGGTTGAACA
66 TGGAAATGCTGACCAAGGTTGAACA
* * * * * *
1027639 AGTTATTCTCATTATGAACTTCTTCTCTCTCATTAGATAAGTTCTTCTCATTATAAACTCCCCGT
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATAAGTTCTTCTCATTATGAACTCTCCAT
* *
1027704 TAGAAATGCTGACTAAGGTTGAACA
66 TGGAAATGCTGACCAAGGTTGAACA
* * * * *
1027729 AGTTCTTGTCATTACGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCTAC
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATAAGTTCTTCTCATTATGAACTCTCCAT
*
1027794 TGGAAATGTTGAGCCAAGGTTGAACA
66 TGGAAATGCTGA-CCAAGGTTGAACA
* * *
1027820 AGTTCTTCTCATTATAAACTTCTTCTCCCTCGTTGGATAAGTTCTTCTCATTATGAACTCTCTGA
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATAAGTTCTTCTCATTATGAACTCTC-CA
*
1027885 -TGGAAATGCTGACTAAGGTTGAACA
65 TTGGAAATGCTGACCAAGGTTGAACA
* * * * *
1027910 ACTTCTTATCATTATGAACTT-TCTCTCCCTCATTGGATAAGTTATTCTCATTATCAACTCTCCG
1 AGTTCTTCTCATTATGAACTTCT-TCTCCCTCATTGGATAAGTTCTTCTCATTATGAACTCTCCA
* *
1027974 TTGGAAATGCAGACTAAGGTTGAACA
65 TTGGAAATGCTGACCAAGGTTGAACA
* * * * *
1028000 AGATCTTCTCATTATGAACTTCTTCTCCCTTATTGGATGAGTTCTTCCCATTATGAACTCTCCAA
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATAAGTTCTTCTCATTATGAACTCTCCAT
*
1028065 TGGAAAT-CTTTAACCAAGGTTGAACA
66 TGGAAATGC--TGACCAAGGTTGAACA
* * ** * *
1028091 AGTTCTTCTCATTATGAAATTATTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACTCTCCAC
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATAAGTTCTTCTCATTATGAACTCTCCAT
*
1028156 TAGAAAT-CTTGAACCAAGGTTGAACA
66 TGGAAATGC-TG-ACCAAGGTTGAACA
* *
1028182 AGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAA-TTCTTCTCATTATGAACTCTTCA
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGAT-AAGTTCTTCTCATTATGAACTCTCCA
*
1028246 CTGGAAATG
65 TTGGAAATG
1028255 TTGTTCGGTT
Statistics
Matches: 624, Mismatches: 72, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
89 2 0.00
90 310 0.50
91 310 0.50
92 2 0.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (90 bp):
AGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATAAGTTCTTCTCATTATGAACTCTCCAT
TGGAAATGCTGACCAAGGTTGAACA
Found at i:1027781 original size:271 final size:270
Alignment explanation
Indices: 1027458--1028241 Score: 1187
Period size: 271 Copynumber: 2.9 Consensus size: 270
1027448 TCATTGGATG
*
1027458 AGTTCTTCTCATTACGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAT
1 AGTTCTTCTCATTACGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAA
1027523 TGGAAATATTGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATA
66 TGGAAATATTGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATA
* *
1027588 AGTTCTTCTCATTATGAACTCTCCGTTGGAAATACTGACTAAGGTTGAACAAGTTATTCTCATTA
131 AGTTCTTCTCATTATGAACTCTCCGATGGAAAT-CTGACTAAGGTTGAACAAGTTCTTCTCATTA
* * *
1027653 TGAACTTCTTCTCTCTCATTAGATAAGTTCTTCTCATTATAAACTCCCCGTTAGAAATGCTGACT
195 TGAACTTCTTCTCCCTCATTGGATAAGTTCTTCTCATTATAAACTCCCCGTTAGAAATGCAGACT
1027718 AAGGTTGAACA
260 AAGGTTGAACA
* * *
1027729 AGTTCTTGTCATTACGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCTAC
1 AGTTCTTCTCATTACGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAA
* *
1027794 TGGAAATGTTGAGCCAAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCTCGTTGGATA
66 TGGAAATATTGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATA
* * *
1027859 AGTTCTTCTCATTATGAACTCTCTGATGGAAATGCTGACTAAGGTTGAACAACTTCTTATCATTA
131 AGTTCTTCTCATTATGAACTCTCCGATGGAAAT-CTGACTAAGGTTGAACAAGTTCTTCTCATTA
* * * *
1027924 TGAACTT-TCTCTCCCTCATTGGATAAGTTATTCTCATTATCAACTCTCCGTTGGAAATGCAGAC
195 TGAACTTCT-TCTCCCTCATTGGATAAGTTCTTCTCATTATAAACTCCCCGTTAGAAATGCAGAC
1027988 TAAGGTTGAACA
259 TAAGGTTGAACA
* * * *
1028000 AGATCTTCTCATTATGAACTTCTTCTCCCTTATTGGATGAGTTCTTCCCATTATGAACTCTCCAA
1 AGTTCTTCTCATTACGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAA
* * * * * * *
1028065 TGGAAATCTTTAACCAAGGTTGAACAAGTTCTTCTCATTATGAAATTATTCTCCCTTGTTGGATG
66 TGGAAATATTGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATA
* *
1028130 AGTTCTTCTCATTATGAACTCTCC-ACTAGAAATCTTGAACCAAGGTTGAACAAGTTCTTCTCAT
131 AGTTCTTCTCATTATGAACTCTCCGA-TGGAAATC-TG-ACTAAGGTTGAACAAGTTCTTCTCAT
* *
1028194 TATGAACTTCTTCTCCCTCGTTGGATGAA-TTCTTCTCATTATGAACTC
193 TATGAACTTCTTCTCCCTCATTGGAT-AAGTTCTTCTCATTATAAACTC
1028242 TTCACTGGAA
Statistics
Matches: 466, Mismatches: 41, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
270 3 0.01
271 397 0.85
272 63 0.14
273 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (270 bp):
AGTTCTTCTCATTACGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAA
TGGAAATATTGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATA
AGTTCTTCTCATTATGAACTCTCCGATGGAAATCTGACTAAGGTTGAACAAGTTCTTCTCATTAT
GAACTTCTTCTCCCTCATTGGATAAGTTCTTCTCATTATAAACTCCCCGTTAGAAATGCAGACTA
AGGTTGAACA
Found at i:1028743 original size:66 final size:66
Alignment explanation
Indices: 1028661--1028914 Score: 205
Period size: 66 Copynumber: 3.9 Consensus size: 66
1028651 AGGTTTTGTG
* * *
1028661 TTTCAAGAGGAATTGTCT-ACAGGGAGACAAAATTTAGTTCAAGGGAAACGATCTTAAAGATCGG
1 TTTCAAGAGAAATTGTCTCA-AGGGAGACAAAATTTAGTTCAAGGGAAACGATCTCAAAGATCGC
1028725 TA
65 TA
* * * **
1028727 TTTCAAG-GAAACTTGTCTCAAGAGAGACAAAA-CTAGTTTTAAGGGAAACGATCTCAAAGATTT
1 TTTCAAGAGAAA-TTGTCTCAAGGGAGACAAAATTTAG-TTCAAGGGAAACGATCTCAAAGATCG
*
1028790 CTG
64 CTA
* * * * * *
1028793 TTTCAAGAGAAAGTGTCTCAAGGGAGACAAAATTTATTTCAAGAGAAA-TATATTCAAAGAT-GT
1 TTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTAGTTCAAGGGAAACGAT-CTCAAAGATCGC
*
1028856 TT
65 TA
* * * * * * * *
1028858 TTTCAAAAGAAACTATCTCTAGCGAGACAACATTT-GTTTCAAGTGAAACTATCTCAA
1 TTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTAG-TTCAAGGGAAACGATCTCAA
1028915 GAGACAAAAG
Statistics
Matches: 151, Mismatches: 29, Indels: 17
0.77 0.15 0.09
Matches are distributed among these distances:
65 52 0.34
66 92 0.61
67 7 0.05
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (66 bp):
TTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTAGTTCAAGGGAAACGATCTCAAAGATCGCT
A
Found at i:1028886 original size:65 final size:66
Alignment explanation
Indices: 1028780--1028905 Score: 157
Period size: 65 Copynumber: 1.9 Consensus size: 66
1028770 GGAAACGATC
* * * *
1028780 TCAAAGATTTCTGTTTCAAGAGAAAGTGTCTCAAGGGAGACAAAATTTATTTCAAGAGAAATATA
1 TCAAAGATTTCTGTTTCAAAAGAAACTATCTCAAGCGAGACAAAATTTATTTCAAGAGAAATATA
1028845 T
66 T
* * * *
1028846 TCAAAGATGTT-T-TTTCAAAAGAAACTATCTCTAGCGAGACAACATTTGTTTCAAGTGAAA
1 TCAAAGAT-TTCTGTTTCAAAAGAAACTATCTCAAGCGAGACAAAATTTATTTCAAGAGAAA
1028906 CTATCTCAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
65 40 0.78
66 9 0.18
67 2 0.04
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.31
Consensus pattern (66 bp):
TCAAAGATTTCTGTTTCAAAAGAAACTATCTCAAGCGAGACAAAATTTATTTCAAGAGAAATATA
T
Found at i:1028933 original size:34 final size:34
Alignment explanation
Indices: 1028866--1028948 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
1028856 TTTTTCAAAA
* * * * *
1028866 GAAACTATCTCTAGCGAGACAACATTTGTTTCAAGT
1 GAAACTATCTC-A-AGAGACAAAAGTTGGTTCAAGG
1028902 GAAACTATCTCAAGAGACAAAAGTTGGTTCAAGG
1 GAAACTATCTCAAGAGACAAAAGTTGGTTCAAGG
*
1028936 GAAACAATCTCAA
1 GAAACTATCTCAA
1028949 AGTTGGTGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 29 0.71
35 1 0.02
36 11 0.27
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (34 bp):
GAAACTATCTCAAGAGACAAAAGTTGGTTCAAGG
Found at i:1029346 original size:90 final size:90
Alignment explanation
Indices: 1029105--1029681 Score: 845
Period size: 90 Copynumber: 6.4 Consensus size: 90
1029095 CTTGAAAATC
*
1029105 AGGCTTAGTTTCTAAAA-ACTAA-TTGAAAACATCTTGCACTGAAGGTCTTATGGATGGCCCGAA
1 AGGCTTAGTTTCTAAAATA-TAATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAA
1029168 GGACTTACAAATCAAGAAACCCCCGA
65 GGACTTACAAATCAAGAAACCCCCGA
* *
1029194 AGGCTTAGTTTCTAAAA-ATAATTTGAAAACATCCTGCACTGAAGTTCTTATGGATGGCCCGAAG
1 AGGCTTAGTTTCTAAAATATAATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAG
*
1029258 TACTTACAAATCAAGAAACCCCCGA
66 GACTTACAAATCAAGAAACCCCCGA
* *
1029283 AAGCTTAGTTTCTAAAATATAATTTGAAAACATCATGCACTAAAGGTCTTATGGATGGCCCGAAG
1 AGGCTTAGTTTCTAAAATATAATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAG
1029348 GACTTACAAATCAAGAAACCCCCGA
66 GACTTACAAATCAAGAAACCCCCGA
*
1029373 AGGCTTAGTTTCTAAAATATAATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAG
1 AGGCTTAGTTTCTAAAATATAATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAG
*
1029438 GACTTACAACTCAAGAAACCCCCGA
66 GACTTACAAATCAAGAAACCCCCGA
* * * * * ** *
1029463 AGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTACACTGAAGGTCTTATAGATGGTTCGAAT
1 AGGCTTAGTTTCTAAAATATAATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAG
* * *
1029528 AACTTACAAATCAAGAAACTCTCGA
66 GACTTACAAATCAAGAAACCCCCGA
* ** *
1029553 AGGCTTAGTTTCTAAAATCTCGTTTGAAAACATCATGCACTAAAGGTCTTATGGATGGCCCGAAG
1 AGGCTTAGTTTCTAAAATATAATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAG
* *
1029618 GACTTATAAATCAAGAAACCCCCAA
66 GACTTACAAATCAAGAAACCCCCGA
* ** *
1029643 AGCCTTAGTTTCTTAAAATAATCTTTTGAAAATATCATG
1 AGGCTTAGTTTC-TAAAAT-ATAATTTGAAAACATCATG
1029682 TTTTTTGGGT
Statistics
Matches: 444, Mismatches: 40, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
88 3 0.01
89 98 0.22
90 321 0.72
91 6 0.01
92 16 0.04
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (90 bp):
AGGCTTAGTTTCTAAAATATAATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAG
GACTTACAAATCAAGAAACCCCCGA
Found at i:1031587 original size:33 final size:32
Alignment explanation
Indices: 1031521--1031591 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
1031511 GTCTATTTTC
*
1031521 TTCT-TTCTTATTTTTATCTATTTTTTCTGTTT
1 TTCTCTTCTTATTTTTATATATTTTTTC-GTTT
*
1031553 TTCTCTTCTTTTTTTCTATATATTTTCTTC-TTT
1 TTCTCTTCTTATTTT-TATATATTTT-TTCGTTT
1031586 TTCTCT
1 TTCTCT
1031592 ATTTTATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 4 0.12
33 18 0.53
34 9 0.26
35 3 0.09
ACGTcount: A:0.08, C:0.17, G:0.01, T:0.73
Consensus pattern (32 bp):
TTCTCTTCTTATTTTTATATATTTTTTCGTTT
Found at i:1037899 original size:18 final size:18
Alignment explanation
Indices: 1037872--1037918 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
1037862 TTTACAATTG
* *
1037872 ATTCAAGCCCATCAACCA
1 ATTCAGGCCCAGCAACCA
1037890 ATTCAGGCCCAGCAACCA
1 ATTCAGGCCCAGCAACCA
* *
1037908 GTCCAGGCCCA
1 ATTCAGGCCCA
1037919 ATTCCAGCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.32, C:0.40, G:0.15, T:0.13
Consensus pattern (18 bp):
ATTCAGGCCCAGCAACCA
Found at i:1038222 original size:22 final size:22
Alignment explanation
Indices: 1038194--1038242 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
1038184 CTAGGGTGAG
1038194 TCACCACCGTAGGTCTGATGAC
1 TCACCACCGTAGGTCTGATGAC
* *
1038216 TCACCACCGTAGGTTTGGTGAC
1 TCACCACCGTAGGTCTGATGAC
1038238 TCACC
1 TCACC
1038243 GGTAGGGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.24
Consensus pattern (22 bp):
TCACCACCGTAGGTCTGATGAC
Found at i:1038325 original size:13 final size:13
Alignment explanation
Indices: 1038307--1038369 Score: 81
Period size: 13 Copynumber: 4.7 Consensus size: 13
1038297 CATACAGAAA
*
1038307 ACAACAACAGCGC
1 ACAACAACAGCAC
* *
1038320 ATAACAACAGCAT
1 ACAACAACAGCAC
1038333 ACAACAACAGCAC
1 ACAACAACAGCAC
1038346 ACAACAACAGCAGAC
1 ACAACAACAGC--AC
1038361 ACAACAACA
1 ACAACAACA
1038370 TCGACAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
13 32 0.74
15 11 0.26
ACGTcount: A:0.54, C:0.33, G:0.10, T:0.03
Consensus pattern (13 bp):
ACAACAACAGCAC
Found at i:1042687 original size:13 final size:13
Alignment explanation
Indices: 1042678--1042713 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
1042668 ACAAAAAGGA
1042678 AAAATGAAAAAGC
1 AAAATGAAAAAGC
1042691 AAAATGAAAAAGC
1 AAAATGAAAAAGC
1042704 AAAATGAAAA
1 AAAATGAAAA
1042714 GTAATTCGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.72, C:0.06, G:0.14, T:0.08
Consensus pattern (13 bp):
AAAATGAAAAAGC
Found at i:1046560 original size:20 final size:20
Alignment explanation
Indices: 1046531--1046600 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
1046521 ATTTCCCACG
*
1046531 CATTTTTAAAGCCTACGGGT
1 CATTTGTAAAGCCTACGGGT
* * *
1046551 CATTTGTAAAGCATCCGGAT
1 CATTTGTAAAGCCTACGGGT
* *
1046571 CATTTGTAAAGCCTTCGTGT
1 CATTTGTAAAGCCTACGGGT
*
1046591 CATTTATAAA
1 CATTTGTAAA
1046601 ACCTCAGGGC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (20 bp):
CATTTGTAAAGCCTACGGGT
Found at i:1046701 original size:20 final size:20
Alignment explanation
Indices: 1046676--1046721 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
1046666 TCTAGAAAAT
*
1046676 TAAAGCCTTCGAGTCATTTG
1 TAAAGCCTCCGAGTCATTTG
*
1046696 TAAAGCCTCCGGGTCATTTG
1 TAAAGCCTCCGAGTCATTTG
1046716 TAAAGC
1 TAAAGC
1046722 ATACAGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (20 bp):
TAAAGCCTCCGAGTCATTTG
Found at i:1047464 original size:18 final size:18
Alignment explanation
Indices: 1047437--1047472 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1047427 TTTACAATTT
*
1047437 ATTCAAGCCCAGGAACCA
1 ATTCAAGCCCAGCAACCA
*
1047455 ATTCAGGCCCAGCAACCA
1 ATTCAAGCCCAGCAACCA
1047473 GCCCAGGCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.36, G:0.17, T:0.11
Consensus pattern (18 bp):
ATTCAAGCCCAGCAACCA
Found at i:1052719 original size:49 final size:50
Alignment explanation
Indices: 1052661--1052760 Score: 193
Period size: 49 Copynumber: 2.0 Consensus size: 50
1052651 CATCCTGGGG
1052661 TGCACCGACGGTCCCAACAGTGGTATGAGAGCCACTTTTACGATCCGAAT
1 TGCACCGACGGTCCCAACAGTGGTATGAGAGCCACTTTTACGATCCGAAT
1052711 TGCA-CGACGGTCCCAACAGTGGTATGAGAGCCACTTTTACGATCCGAAT
1 TGCACCGACGGTCCCAACAGTGGTATGAGAGCCACTTTTACGATCCGAAT
1052760 T
1 T
1052761 TAGGTTAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 46 0.92
50 4 0.08
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (50 bp):
TGCACCGACGGTCCCAACAGTGGTATGAGAGCCACTTTTACGATCCGAAT
Found at i:1064380 original size:2 final size:2
Alignment explanation
Indices: 1064373--1064399 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1064363 AAAACTGACC
1064373 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1064400 GTTCGCATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1070222 original size:15 final size:15
Alignment explanation
Indices: 1070198--1070248 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
1070188 GGGTTTTAGA
*
1070198 AATAACAAAAATAAT
1 AATAAAAAAAATAAT
1070213 AATAAAAAAAGA-AAT
1 AATAAAAAAA-ATAAT
* *
1070228 ATTAAACAAAATAAT
1 AATAAAAAAAATAAT
*
1070243 GATAAA
1 AATAAA
1070249 GTGTAAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 1 0.03
15 27 0.93
16 1 0.03
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.20
Consensus pattern (15 bp):
AATAAAAAAAATAAT
Found at i:1071043 original size:15 final size:15
Alignment explanation
Indices: 1071033--1071061 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1071023 ACAAAATATT
1071033 TAAAA-TAAAAATAA
1 TAAAATTAAAAATAA
1071047 TAAAATTAAAAATAA
1 TAAAATTAAAAATAA
1071062 AGGTTTATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAAATTAAAAATAA
Found at i:1071147 original size:21 final size:21
Alignment explanation
Indices: 1071122--1071169 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
1071112 GAATTTTACT
1071122 TTATCTTTTTGATAACTTCAA
1 TTATCTTTTTGATAACTTCAA
1071143 TTATCTTTTTGATAACTTCAA
1 TTATCTTTTTGATAACTTCAA
1071164 TTATCT
1 TTATCT
1071170 CCAAGCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.15, G:0.04, T:0.54
Consensus pattern (21 bp):
TTATCTTTTTGATAACTTCAA
Found at i:1075909 original size:35 final size:37
Alignment explanation
Indices: 1075841--1075922 Score: 123
Period size: 35 Copynumber: 2.2 Consensus size: 37
1075831 GGCAAAGGAG
*
1075841 GGGTTTGCTATTATACACCTTTGTTTTTTTTATGAGAAA
1 GGGTTTGCTATTATACACC--TGTTTTTTTTATGAAAAA
1075880 GGGTTTGCTATTATACA-C-GTTTTTTTTATGAAAAA
1 GGGTTTGCTATTATACACCTGTTTTTTTTATGAAAAA
1075915 GGGTTTGC
1 GGGTTTGC
1075923 ACAATTAACA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
35 24 0.57
38 1 0.02
39 17 0.40
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (37 bp):
GGGTTTGCTATTATACACCTGTTTTTTTTATGAAAAA
Found at i:1086170 original size:43 final size:44
Alignment explanation
Indices: 1086123--1086225 Score: 156
Period size: 43 Copynumber: 2.4 Consensus size: 44
1086113 GAGATATTTT
*
1086123 CAACTTATTT-CTCACACTATGTTGCAGCTATTACCA-AATTACC
1 CAACTTATTTCCT-AAACTATGTTGCAGCTATTACCAGAATTACC
* *
1086166 CAACTTATTTCCTAAACTATGTTGGAGCTATTACCAGCATTACC
1 CAACTTATTTCCTAAACTATGTTGCAGCTATTACCAGAATTACC
1086210 CAACTTATTTCCTAAA
1 CAACTTATTTCCTAAA
1086226 GTTTTTTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
43 31 0.56
44 24 0.44
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.35
Consensus pattern (44 bp):
CAACTTATTTCCTAAACTATGTTGCAGCTATTACCAGAATTACC
Found at i:1090505 original size:16 final size:16
Alignment explanation
Indices: 1090467--1090508 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
1090457 TTGCTTGAAT
* *
1090467 GAAGTTAGGTTATTTC
1 GAAGTTTGGCTATTTC
1090483 GAAGTTTGGCTATTTC
1 GAAGTTTGGCTATTTC
1090499 GAAGTTTGGC
1 GAAGTTTGGC
1090509 ATTCATATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.21, C:0.10, G:0.29, T:0.40
Consensus pattern (16 bp):
GAAGTTTGGCTATTTC
Found at i:1105615 original size:85 final size:86
Alignment explanation
Indices: 1105466--1105644 Score: 201
Period size: 85 Copynumber: 2.1 Consensus size: 86
1105456 ATACATTCAC
* * *
1105466 GACACA-AGAATGTGTGTCATCTTTTTTAATGACGTGTGCTTCAATGACACGCAATGTAAGTCAT
1 GACACACAGAATGTGTGTCATCTTATTTAATGACGTGGGATTCAATGACACGCAATGTAAGTCAT
* *
1105530 ACATGTC-TGTCATAAATTTAT
66 AAATG-CGCGTCATAAATTTAT
*
1105551 GACACACA-AATGTGTGTCATCTTCATTT-ATGACG-GAGGATTCAATGACGCGCAATG--AGCA
1 GACACACAGAATGTGTGTCATCTT-ATTTAATGACGTG-GGATTCAATGACACGCAATGTAAG--
1105611 TCATAAATGCGCGTCATAAATTTAT
62 TCATAAATGCGCGTCATAAATTTAT
*
1105636 GACGCACAG
1 GACACACAG
1105645 TTGCGCGTCA
Statistics
Matches: 80, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
83 2 0.03
84 2 0.03
85 72 0.90
86 4 0.05
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (86 bp):
GACACACAGAATGTGTGTCATCTTATTTAATGACGTGGGATTCAATGACACGCAATGTAAGTCAT
AAATGCGCGTCATAAATTTAT
Found at i:1116231 original size:15 final size:14
Alignment explanation
Indices: 1116213--1116252 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
1116203 TTCCATTTCA
*
1116213 TTCTTTTCTTCATC
1 TTCTTTTCTTAATC
1116227 TTTCTTTTCTTAATC
1 -TTCTTTTCTTAATC
1116242 TTCTTCTTCTT
1 TTCTT-TTCTT
1116253 TTACCATCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.07, C:0.25, G:0.00, T:0.68
Consensus pattern (14 bp):
TTCTTTTCTTAATC
Found at i:1119261 original size:14 final size:15
Alignment explanation
Indices: 1119242--1119276 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
1119232 TTTTGAATTC
1119242 TTTTAT-AGTTTAAA
1 TTTTATCAGTTTAAA
1119256 TTTTATCAGTTTAAA
1 TTTTATCAGTTTAAA
1119271 TTTTAT
1 TTTTAT
1119277 TTTCCTTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (15 bp):
TTTTATCAGTTTAAA
Found at i:1138772 original size:21 final size:20
Alignment explanation
Indices: 1138746--1138787 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
1138736 TGAATCGTTA
1138746 TTCTTAGCTCCTTAATA-TTAG
1 TTCTTAGCT--TTAATACTTAG
1138767 TTCTTAGCTTTAATACTTAG
1 TTCTTAGCTTTAATACTTAG
1138787 T
1 T
1138788 AGGATTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 5 0.25
21 9 0.45
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.50
Consensus pattern (20 bp):
TTCTTAGCTTTAATACTTAG
Found at i:1140336 original size:81 final size:80
Alignment explanation
Indices: 1140187--1140754 Score: 635
Period size: 81 Copynumber: 7.1 Consensus size: 80
1140177 AAGTAGTTAC
* * * * * * ** * * *
1140187 TCTTTTACCCAAAGGCATTTAGCCTTTCATCTAAATTGTATTCTTGACACCTTTTTTCCAATTAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACATCTTTTTT-CAAATGC
1140252 ACAGCTAGG-CATTAAA
65 ACAGCTAGGCCATT-AA
* *
1140268 TCTTTAACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACATCTTTCTTTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACATCTTT-TTTCAAATGC
* *
1140333 ACAGCTAGGCAATTAT
65 ACAGCTAGGCCATTAA
* * * * * * *
1140349 TCTTTTACTCAAAGGTATTTAACTTTTCATCTAATTGGAATGATTGACA-CCTTTGTCAAATACA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACATCTTTTTTCAAATGCA
*
1140413 TAGCTAGGCCATTAA
66 CAGCTAGGCCATTAA
* *
1140428 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGG-ACTAATTGACACCTTTCATTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCA-TAATTGACATCTTT-TTTCAAATG
*
1140492 CACAACTAGGCCATTAA
64 CACAGCTAGGCCATTAA
* * *
1140509 TCTTTTACTCAAAGGTATTAAACCTTTCATCTAACTGGCATAATTAACAT-TTTTTCTCAAAAGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACATCTTTTT-TCAAATGC
1140573 ACAGCTAGGCCATTAA
65 ACAGCTAGGCCATTAA
* * * * *
1140589 TCTTTTACTCAAATGTATTTAACATTTCATCTGACTGGCATAATTGACA-CATTTCTATCAAATA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACATC-TTT-TTTCAAATG
* * *
1140653 TATAGCCAGGCCATTAA
64 CACAGCTAGGCCATTAA
** *
1140670 TCTTTTACTCAAAGGTATTTAACCTTTCATCTGGCTGACATAATTGACAT-TTTTTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACATCTTTTT-TCAAATGC
* *
1140734 ACAGCCAAGCCATTAA
65 ACAGCTAGGCCATTAA
1140750 TCTTT
1 TCTTT
1140755 ATTTAAAACA
Statistics
Matches: 415, Mismatches: 60, Indels: 25
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.00
79 67 0.16
80 103 0.25
81 236 0.57
82 8 0.02
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (80 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACATCTTTTTTCAAATGCA
CAGCTAGGCCATTAA
Found at i:1140456 original size:160 final size:159
Alignment explanation
Indices: 1140187--1140754 Score: 624
Period size: 161 Copynumber: 3.5 Consensus size: 159
1140177 AAGTAGTTAC
* * * * ** * *
1140187 TCTTTTACCCAAAGGCATTTAGCCTTTCATCTAAATT-GTATTCTTGACACCTTTTTTCCAATTA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCT-AATTGGAATAATTGACACC-TTTCT-CAAATA
* *
1140251 CACAGCTAGG-CATTAAATCTTTAACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGA
63 CACAGCTAGGCCATT-AATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGA
* *
1140315 CATCTTTCTTTCAAATGCACAGCTAGGCAATTAT
127 CA-CTTTCTTTCAAATGCACAGCTAGGCCATTAA
* * * *
1140349 TCTTTTACTCAAAGGTATTTAACTTTTCATCTAATTGGAATGATTGACACCTTTGTCAAATACAT
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGAATAATTGACACCTTTCTCAAATACAC
1140414 AGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGG-ACTAATTGACAC
66 AGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCA-TAATTGACA-
* *
1140478 CTTTCATTCAAATGCACAACTAGGCCATTAA
129 CTTTCTTTCAAATGCACAGCTAGGCCATTAA
* * * * **
1140509 TCTTTTACTCAAAGGTATTAAACCTTTCATCTAACTGGCATAATTAACATTTTTTCTCAAA-AGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGAATAATTGACA-CCTTTCTCAAATA-C
* * *
1140573 ACAGCTAGGCCATTAATCTTTTACTCAAATGTATTTAACATTTCATCTGACTGGCATAATTGACA
64 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
* ** * *
1140638 CATTTCTATCAAATATATAGCCAGGCCATTAA
129 C-TTTCTTTCAAATGCACAGCTAGGCCATTAA
*** ** * *
1140670 TCTTTTACTCAAAGGTATTTAACCTTTCATCTGGCT-GACATAATTGACATTTTTTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGA-ATAATTGACA-CCTTTCTCAAATAC
* *
1140734 ACAGCCAAGCCATTAATCTTT
64 ACAGCTAGGCCATTAATCTTT
1140755 ATTTAAAACA
Statistics
Matches: 351, Mismatches: 46, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
159 1 0.00
160 134 0.38
161 176 0.50
162 40 0.11
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (159 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGAATAATTGACACCTTTCTCAAATACAC
AGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACT
TTCTTTCAAATGCACAGCTAGGCCATTAA
Found at i:1140635 original size:161 final size:160
Alignment explanation
Indices: 1140251--1140754 Score: 656
Period size: 161 Copynumber: 3.1 Consensus size: 160
1140241 TTTCCAATTA
* *
1140251 CACAGCTAGG-CATTAAATCTTTAACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGA
1 CACAGCTAGGCCATT-AATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGA
* * * *
1140315 CATCTTTCTTTCAAATGCACAGCTAGGCAATTATTCTTTTACTCAAAGGTATTTAACTTTTCATC
65 CACCTTTC-TTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATC
* * * **
1140380 TAATTGGAATGATTGACA-CCTTTGTCAAATA-
129 TAACTGGCATAATTGACATTTTTTGTCAAA-AG
*
1140411 CATAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGG-ACTAATTGA
1 CACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCA-TAATTGA
* *
1140475 CACCTTTCATTCAAATGCACAACTAGGCCATTAATCTTTTACTCAAAGGTATTAAACCTTTCATC
65 CACCTTTC-TTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATC
* *
1140540 TAACTGGCATAATTAACATTTTTTCTCAAAAG
129 TAACTGGCATAATTGACATTTTTTGTCAAAAG
* * *
1140572 CACAGCTAGGCCATTAATCTTTTACTCAAATGTATTTAACATTTCATCTGACTGGCATAATTGAC
1 CACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAC
* ** * *
1140637 ACATTTCTATCAAATATATAGCCAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCT
66 ACCTTTCT-TCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCT
** * *
1140702 GGCTGACATAATTGACATTTTTTGTCAAATG
130 AACTGGCATAATTGACATTTTTTGTCAAAAG
* *
1140733 CACAGCCAAGCCATTAATCTTT
1 CACAGCTAGGCCATTAATCTTT
1140755 ATTTAAAACA
Statistics
Matches: 302, Mismatches: 36, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
159 1 0.00
160 128 0.42
161 172 0.57
162 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (160 bp):
CACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAC
ACCTTTCTTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
ACTGGCATAATTGACATTTTTTGTCAAAAG
Found at i:1150674 original size:15 final size:15
Alignment explanation
Indices: 1150651--1150703 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
1150641 ACGGGGTAAA
* *
1150651 AAGACAACGTCTAAG
1 AAGAAAACGTCAAAG
1150666 AAGAAAACGTCAAAG
1 AAGAAAACGTCAAAG
*
1150681 AAGAAAATGTCAAAG
1 AAGAAAACGTCAAAG
1150696 AAGGAAAA
1 AA-GAAAA
1150704 AGAAAGCATC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
15 29 0.85
16 5 0.15
ACGTcount: A:0.58, C:0.11, G:0.21, T:0.09
Consensus pattern (15 bp):
AAGAAAACGTCAAAG
Found at i:1156662 original size:8 final size:8
Alignment explanation
Indices: 1156649--1156709 Score: 76
Period size: 8 Copynumber: 8.1 Consensus size: 8
1156639 ATTATTCGTC
1156649 AATATATA
1 AATATATA
1156657 AATATAT-
1 AATATATA
1156664 AA-ATATA
1 AATATATA
1156671 AATATAT-
1 AATATATA
1156678 -ATATATA
1 AATATATA
*
1156685 TATATATA
1 AATATATA
*
1156693 TATATATA
1 AATATATA
1156701 AATATATA
1 AATATATA
1156709 A
1 A
1156710 TTTACGAAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
6 10 0.21
7 4 0.08
8 34 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
AATATATA
Found at i:1156669 original size:6 final size:6
Alignment explanation
Indices: 1156650--1156708 Score: 82
Period size: 6 Copynumber: 9.8 Consensus size: 6
1156640 TTATTCGTCA
* * *
1156650 ATATAT AAATAT ATAAAT ATAAAT ATATAT ATATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
*
1156698 ATAAAT ATATA
1 ATATAT ATATA
1156709 ATTTACGAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (6 bp):
ATATAT
Found at i:1156671 original size:14 final size:14
Alignment explanation
Indices: 1156652--1156709 Score: 80
Period size: 14 Copynumber: 4.0 Consensus size: 14
1156642 ATTCGTCAAT
1156652 ATATAAATATATAA
1 ATATAAATATATAA
1156666 ATATAAATATATATA
1 ATATAAATATATA-A
* *
1156681 TATATATATATATAT
1 -ATATAAATATATAA
1156696 ATATAAATATATAA
1 ATATAAATATATAA
1156710 TTTACGAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
14 25 0.66
15 1 0.03
16 12 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATAAATATATAA
Found at i:1156961 original size:85 final size:85
Alignment explanation
Indices: 1156764--1156952 Score: 247
Period size: 85 Copynumber: 2.2 Consensus size: 85
1156754 AATGACGTGT
** * *
1156764 GCTTCAATGACATGCAATGTAAGTCATACATACGTGTCATAAATTTATGACACACAAATTTATGT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTATGT
* *
1156829 CAAGCAGATTTATGATAGGG
66 CAAGCAGATTTATGACAGAG
* * *
1156849 GCTTCAATGACGCTCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTGTTT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTATGT
*
1156914 C-ATCTTA-ATTTATGACAGAG
66 CAAGC--AGATTTATGACAGAG
*
1156934 GCTTTAATGACGCGCAATG
1 GCTTCAATGACGCGCAATG
1156953 AGCATCATAA
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
84 2 0.02
85 87 0.97
86 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (85 bp):
GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTATGT
CAAGCAGATTTATGACAGAG
Done.