Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 127 of 345
Found at i:43054893 original size:32 final size:33
Alignment explanation
Indices: 43054832--43054894 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
43054822 ATAAAATTAT
* *
43054832 AAAATCTAACAACAATAAAAAGTAGTTTCAATA
1 AAAATCTAAAAACAATAAAAAATAGTTTCAATA
43054865 AAAAT-TAAAAACAATAAATAAATA-TTTCAA
1 AAAATCTAAAAACAATAAA-AAATAGTTTCAA
43054895 AACATCTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 18 0.67
33 9 0.33
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (33 bp):
AAAATCTAAAAACAATAAAAAATAGTTTCAATA
Found at i:43063644 original size:46 final size:45
Alignment explanation
Indices: 43063591--43063757 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 45
43063581 TGATAAGTGT
43063591 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATAAGA
* * * *
43063637 GCCAGTGTAAGACAAGTCTGGGACATGCATCGG--CATTGAGAGGTGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATT-ATA--AGA
* * **
43063683 GCTACTGTAAGAAATGTCTGGGACATGCATCGGCCTCGAGTTATACTA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-C-A-TTATAAGA
*
43063731 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
43063758 GTGTCAGCTT
Statistics
Matches: 99, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 4 0.04
44 2 0.02
46 62 0.63
48 25 0.25
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATAAGA
Found at i:43063856 original size:49 final size:49
Alignment explanation
Indices: 43063594--43063949 Score: 181
Period size: 49 Copynumber: 7.5 Consensus size: 49
43063584 TAAGTGTGCT
* * * *
43063594 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCAC-AT-TAT-AAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAA-AGCC
** * * * * * *
43063640 AGTGTAAGACAAGTCTGGGACAT-GCATCGGCATTGAGAGGTG--AGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* ** * * * *
43063686 ACTGTAAGAAATGTCTGGGACAT-GCATCGGCCTCGAGT-TAT-ACTAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGA-TAGATGA-AAGCC
** * * * * *
43063734 AGTGTAAGACCTGTCTGGGACATGGTGTC-AGCTTG-TTG-TG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
**
43063778 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGGGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * * **
43063827 AGTGTAAGACCTGTCTGGGACACGACATCGGCCTCGATATATGAAAGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * **
43063876 AGTGCAAGACCTGTCTGGGACATGGCATCGACTTTGAT-G-TGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
*
43063923 AGTGTAAAACCATGTCTGGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
43063950 GTCAGCATCT
Statistics
Matches: 236, Mismatches: 56, Indels: 34
0.72 0.17 0.10
Matches are distributed among these distances:
44 28 0.12
45 2 0.01
46 70 0.30
47 16 0.07
48 44 0.19
49 76 0.32
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:43063886 original size:142 final size:145
Alignment explanation
Indices: 43063688--43063949 Score: 340
Period size: 142 Copynumber: 1.8 Consensus size: 145
43063678 GGTGAGCTAC
* * *
43063688 TGTAAGAAATGTCTGGGACATGCATCGGCCTCGAGTTATACTAGCTAGTGTAAGACCTGTCTGGG
1 TGTAAGAAATGTCTGGGACACGCATCGGCCTCGAGTTATACAAGCTAGTGCAAGACCTGTCTGGG
** * * *
43063753 ACATGGTGTC-AGC-TTGTTGTG-T-GTCAGTGTAAGACC-TGTCTGGGACATGGCATCGACACC
66 ACATGGCATCGA-CTTTGATGTGCTAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGACACC
43063813 GATAGATGAGGGCCAG
130 GATAGATGAGGGCCAG
** *
43063829 TGTAAGACCTGTCTGGGACACGACATCGGCCTCGA-TATATGA-AAGTTAGTGCAAGACCTGTCT
1 TGTAAGAAATGTCTGGGACACG-CATCGGCCTCGAGT-TAT-ACAAGCTAGTGCAAGACCTGTCT
43063892 GGGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAAACCATGTCTGGGACATGGC
63 GGGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAAACCATGTCTGGGACATGGC
43063950 GTCAGCATCT
Statistics
Matches: 102, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
141 20 0.20
142 45 0.44
143 9 0.09
144 1 0.01
145 12 0.12
146 15 0.15
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (145 bp):
TGTAAGAAATGTCTGGGACACGCATCGGCCTCGAGTTATACAAGCTAGTGCAAGACCTGTCTGGG
ACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGACACCG
ATAGATGAGGGCCAG
Found at i:43067492 original size:29 final size:29
Alignment explanation
Indices: 43067450--43067515 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
43067440 ATCCCTACTC
* *
43067450 AGAGTTGACTTAAATTGGCATGTACCTCT
1 AGAGTCGACTTAAATTGGCATGTACCTAT
43067479 AGAGTCGACTTAAATTGGCATGTACCTAT
1 AGAGTCGACTTAAATTGGCATGTACCTAT
*
43067508 AGACTCGA
1 AGAGTCGA
43067516 TTCTAAGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (29 bp):
AGAGTCGACTTAAATTGGCATGTACCTAT
Found at i:43070541 original size:20 final size:21
Alignment explanation
Indices: 43070504--43070561 Score: 84
Period size: 20 Copynumber: 2.8 Consensus size: 21
43070494 TAGTAATTTG
43070504 AATTT-AAAATTTGAAAACTT
1 AATTTGAAAATTTGAAAACTT
43070524 AATTTGAAAATTTG-AAACTT
1 AATTTGAAAATTTGAAAACTT
*
43070544 AATTTGAAAGATTGGAAA
1 AATTTGAAA-ATTTGAAA
43070562 TAGTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
20 20 0.59
21 12 0.35
22 2 0.06
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.36
Consensus pattern (21 bp):
AATTTGAAAATTTGAAAACTT
Found at i:43075310 original size:17 final size:18
Alignment explanation
Indices: 43075278--43075311 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43075268 CCATATTGCA
43075278 GCCCATGTAGGCCCACAC
1 GCCCATGTAGGCCCACAC
*
43075296 GCCCGTGTA-GCCCACA
1 GCCCATGTAGGCCCACA
43075312 TAGCCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.44, G:0.24, T:0.12
Consensus pattern (18 bp):
GCCCATGTAGGCCCACAC
Found at i:43075317 original size:18 final size:18
Alignment explanation
Indices: 43075277--43075318 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
43075267 CCCATATTGC
43075277 AGCCCATGTAGGCCCACA
1 AGCCCATGTAGGCCCACA
* *
43075295 CGCCCGTGTA-GCCCACA
1 AGCCCATGTAGGCCCACA
43075312 TAGCCCA
1 -AGCCCA
43075319 AAAATGGCCT
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.24, C:0.43, G:0.21, T:0.12
Consensus pattern (18 bp):
AGCCCATGTAGGCCCACA
Found at i:43094462 original size:12 final size:12
Alignment explanation
Indices: 43094445--43094470 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43094435 GCTTTTTCTC
43094445 GCGGACCTCTGA
1 GCGGACCTCTGA
43094457 GCGGACCTCTGA
1 GCGGACCTCTGA
43094469 GC
1 GC
43094471 ATGGAATGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.35, G:0.35, T:0.15
Consensus pattern (12 bp):
GCGGACCTCTGA
Found at i:43095888 original size:25 final size:27
Alignment explanation
Indices: 43095851--43095903 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
43095841 TCAAACATGC
43095851 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
43095877 ATTTCGGT-AATTTACCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
43095903 A
1 A
43095904 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:43097412 original size:26 final size:26
Alignment explanation
Indices: 43097376--43097459 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
43097366 CATGAAATTC
43097376 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
43097402 TTATCATGAAACATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
43097428 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
43097454 TTATCA
1 TTATCA
43097460 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:43101662 original size:26 final size:26
Alignment explanation
Indices: 43101633--43101685 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
43101623 TCAAACATGC
43101633 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGT-AATTTAACTCCTAGGGGT
* * *
43101659 ATTTCGGTATTTTATCTCCTAGGGGT
1 ATTTAGGTAATTTAACTCCTAGGGGT
43101685 A
1 A
43101686 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTAACTCCTAGGGGT
Found at i:43103198 original size:26 final size:26
Alignment explanation
Indices: 43103162--43103245 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
43103152 CATGAAATTC
43103162 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
43103188 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
43103214 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
43103240 TTATCA
1 TTATCA
43103246 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:43104544 original size:23 final size:23
Alignment explanation
Indices: 43104462--43104543 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 23
43104452 CAATTCTGTT
* * *
43104462 ATGCCTTTTTGGCATATTTTATA
1 ATGCCTTTGTAGCATATTCTATA
* **
43104485 ATGCCTTTGTGGCATATTCTGCA
1 ATGCCTTTGTAGCATATTCTATA
* * *
43104508 ATACCTTTGTAGCGTATTCTATT
1 ATGCCTTTGTAGCATATTCTATA
43104531 ATGCCTTTGTAGC
1 ATGCCTTTGTAGC
43104544 GCATTATTTA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.20, C:0.18, G:0.17, T:0.45
Consensus pattern (23 bp):
ATGCCTTTGTAGCATATTCTATA
Found at i:43104917 original size:57 final size:57
Alignment explanation
Indices: 43104827--43104974 Score: 235
Period size: 57 Copynumber: 2.6 Consensus size: 57
43104817 TGCTAGCTAG
43104827 AACTAAGTTTGTCTACGTTATGTATAGATGTTATCTAAATTTTGTGGTATCCACCAA
1 AACTAAGTTTGTCTACGTTATGTATAGATGTTATCTAAATTTTGTGGTATCCACCAA
* *
43104884 AACTAAGTTTGTCTACGTTATGTACAGAAGTTATCTAAATTTTGTGGTATCCACCAA
1 AACTAAGTTTGTCTACGTTATGTATAGATGTTATCTAAATTTTGTGGTATCCACCAA
* * *
43104941 ATCTAAGTATTTTC-ACATTATGTATAGATGTTAT
1 AACTAAGT-TTGTCTACGTTATGTATAGATGTTAT
43104975 TTAGAGTCTA
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
57 79 0.95
58 4 0.05
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.41
Consensus pattern (57 bp):
AACTAAGTTTGTCTACGTTATGTATAGATGTTATCTAAATTTTGTGGTATCCACCAA
Found at i:43107306 original size:4 final size:4
Alignment explanation
Indices: 43107297--43107337 Score: 75
Period size: 4 Copynumber: 10.5 Consensus size: 4
43107287 TTTTTAAACT
43107297 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA -TAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
43107338 CAAAAAACCA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.08
4 33 0.92
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (4 bp):
TTAA
Found at i:43107589 original size:15 final size:15
Alignment explanation
Indices: 43107569--43107620 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
43107559 ACTACAAAAC
43107569 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
43107584 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
43107603 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
43107618 ATT
1 ATT
43107621 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:43107739 original size:22 final size:22
Alignment explanation
Indices: 43107711--43107754 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
43107701 ATTTTAAATA
43107711 ATTTATTAAAATAATAAATTAT
1 ATTTATTAAAATAATAAATTAT
* * *
43107733 ATTTATTATATTAATAATTTAT
1 ATTTATTAAAATAATAAATTAT
43107755 TATATGACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTATTAAAATAATAAATTAT
Found at i:43112628 original size:51 final size:51
Alignment explanation
Indices: 43112570--43112669 Score: 200
Period size: 51 Copynumber: 2.0 Consensus size: 51
43112560 TATAGATAGT
43112570 ATGGTAGAAAGATTCATATTTTTTTTCTACCATACTATCGAGTTTTATAAG
1 ATGGTAGAAAGATTCATATTTTTTTTCTACCATACTATCGAGTTTTATAAG
43112621 ATGGTAGAAAGATTCATATTTTTTTTCTACCATACTATCGAGTTTTATA
1 ATGGTAGAAAGATTCATATTTTTTTTCTACCATACTATCGAGTTTTATA
43112670 GGATACTGCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (51 bp):
ATGGTAGAAAGATTCATATTTTTTTTCTACCATACTATCGAGTTTTATAAG
Found at i:43114409 original size:15 final size:15
Alignment explanation
Indices: 43114389--43114431 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
43114379 TATTAGAAAT
43114389 AAATAGATATTATAA
1 AAATAGATATTATAA
43114404 AAATAGA-A--AT--
1 AAATAGATATTATAA
43114414 AAATAGATATTATAA
1 AAATAGATATTATAA
43114429 AAA
1 AAA
43114432 GAAACTAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 7 0.30
11 1 0.04
12 2 0.09
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATAGATATTATAA
Found at i:43114410 original size:25 final size:25
Alignment explanation
Indices: 43114382--43114431 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
43114372 AAATATTTAT
43114382 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
43114407 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
43114432 GAAACTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (25 bp):
TAGAAATAAATAGATATTATAAAAA
Found at i:43117125 original size:29 final size:30
Alignment explanation
Indices: 43117092--43117149 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
43117082 CATTTATCCT
* * *
43117092 AGATTGATACTTATAGTTTTTTTT-GTCCC
1 AGATTGATACCTAAACTTTTTTTTCGTCCC
*
43117121 AGATTGGTACCTAAACTTTTTTTTCGTCC
1 AGATTGATACCTAAACTTTTTTTTCGTCC
43117150 ACTATATTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (30 bp):
AGATTGATACCTAAACTTTTTTTTCGTCCC
Found at i:43120171 original size:29 final size:29
Alignment explanation
Indices: 43120113--43120173 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
43120103 GCTATCTCTG
* * * * *
43120113 AAAGGATGCCTTTATGGTAATTTTTGTTA
1 AAAGGACGCCTTTATGGCAATCTCTATTA
43120142 AAAGGACGCCTTTATGGCAATCTCTATTA
1 AAAGGACGCCTTTATGGCAATCTCTATTA
43120171 AAA
1 AAA
43120174 AGTAGTCTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (29 bp):
AAAGGACGCCTTTATGGCAATCTCTATTA
Found at i:43120254 original size:28 final size:28
Alignment explanation
Indices: 43120223--43120296 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
43120213 TGGTGATTTC
**
43120223 TGTTAAAGGAAGTTTTTATGACGATCTT
1 TGTTAAAGGAAGCCTTTATGACGATCTT
* * *
43120251 TGTTACAGGAAGCCTTTATGACTATCTC
1 TGTTAAAGGAAGCCTTTATGACGATCTT
* *
43120279 AGTTTAAAGGATGCCTTT
1 TG-TTAAAGGAAGCCTTT
43120297 GTGCCTATCT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
28 24 0.65
29 13 0.35
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (28 bp):
TGTTAAAGGAAGCCTTTATGACGATCTT
Found at i:43120304 original size:29 final size:28
Alignment explanation
Indices: 43120257--43120325 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
43120247 TCTTTGTTAC
* *
43120257 AGGAAGCCTTTATGACTATCTCAGTTTAA
1 AGGATGCCTTTATGACTATCTCA-ATTAA
* *
43120286 AGGATGCCTTTGTGCCTATCTCAATTAA
1 AGGATGCCTTTATGACTATCTCAATTAA
*
43120314 ATGAATGCCTTT
1 A-GGATGCCTTT
43120326 TGGAAAACTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 5 0.15
29 29 0.85
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (28 bp):
AGGATGCCTTTATGACTATCTCAATTAA
Found at i:43131396 original size:24 final size:25
Alignment explanation
Indices: 43131369--43131434 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
43131359 GAATTCTCTA
*
43131369 GAAAGCCTTT-TGGCAATTT-TTTT
1 GAAAGCCTTTGTGGCAATTTATCTT
* *
43131392 GGAAAACCTTTGTGGCGATTTATCTT
1 -GAAAGCCTTTGTGGCAATTTATCTT
43131418 GAAAGCCTTTGTGGCAA
1 GAAAGCCTTTGTGGCAA
43131435 AACCTTTGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 9 0.26
25 23 0.66
26 3 0.09
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (25 bp):
GAAAGCCTTTGTGGCAATTTATCTT
Found at i:43135068 original size:715 final size:711
Alignment explanation
Indices: 43133095--43135232 Score: 3143
Period size: 712 Copynumber: 3.0 Consensus size: 711
43133085 ACCAATAAAA
* * *
43133095 AAATCCCATGATTTACGACACTTATTTTTTGAAGTAAAGCAACTGGTATTTATAAATGAAGTAAC
1 AAATCCCATAATTTACGACACTTATTTTTTGAAGTAAAGCAATTGGTATTTATAAATGAAATAAC
* **
43133160 TAAAACTGAACAGTTACATCACACTA-CTGTATTGCAAAAAGAAAATGAACCGTTCAGCTTG-AA
66 TAAAACTGAACAGTTACATCACACTAGTTGTATCACAAAAAGAAAATGAACCGTTCAGCTTGAAA
*
43133223 AAAAAAGCCAACTATTGAATAACGTTGAGGTGAAACTTCATTTGAAGCATCAAAAACATTCCTAG
131 AAAAAAGCCAACTGTTGAATAACGTT-AGGTGAAACTTCATTTGAAGCATCAAAAACATTCCTAG
* *
43133288 GCCTTTCAACTCCAATGTATCTTGAAGGTAACAAATTTCAGAGACTCTCCACATACCTGGCCTCC
195 GCCTTTCAACTCCAATGTATCCTGAAGGTAACAAATTTCGGAGACTCTCCACATACCTGGCCTCC
** * *
43133353 ATTGTGGTCTAATATGGGGGTCCGTCCACCATCGGTCCTCTTCTACTGTAGCAGTAAACGTAAGC
260 ACCGTGGTCTAATATGGGGGTCCGTCCACCATCGGTCCTCCTCTACTGTAGCAGAAAACGTAAGC
* * * * *
43133418 ACTCATTAAGTTAGATAAATTGTTTCTCCTCTCTTTAATCCTTCTGTTGCTAAAATGGTAAGCCA
325 ACTCCTTGAGTTAGATAAATTGTTT-TCCTCTCTTTAATCATTCTGTTGCTAAAAAGGTGAGCCA
** * * *
43133483 CACCATTCGTCTTTCTTGGTGCATGCCTGAAGTGACAGTTACTGTAGCTTTCTCGTAGTGATTTT
389 CACCATTCGTCTTTCTTGGTGCATGCCAAAAG-GACAGTGACTGTAGCTTTCCCGTAGCGATTTT
* * * *
43133548 GAGTTCCTTATATACAAACAAATGGTAGATCTATCCACCCTATCTGCAAAAAGCTTTTTACAACT
453 GAGTTTCTTATATACGAACAAATGGTAGATCTATCCACCCTATCTGCAAGAAGCTTTTTACAAAT
* * *
43133613 ATCAAAGTGTCCCCTTCTATTTCCACCTCATAAAACCCTAAATCTAATCCCATCTGCACCACCTG
518 ATCAAAGCGTCCCCTTCTATTTCCACCTCCTAAAACCCCAAATCTAATCCCATCTGCACCACCTG
* * *
43133678 GCAACATACAAGGGCTTCTACAACAAACGACAAAGGTATATGGTTATTAACTACTAATCTAGAAC
583 GTAACATGCAAGGGCTTCTACAACAAACGACAAAGGTATATGGTTATTAACTACTAATCTGGAAC
* ** * * *
43133743 CCAATACTCTCTTATTTGCATTCTTAAACACTAATCTTGTGCAGGATTTCATGAAATAATTTTG
648 CCAAGACTCTCTCGTTTGCATTCCTAAACACTAATCTTGTGCAGGACTTCATGAAATGATTTTG
* *
43133807 AAATCCCATGATTTACAACACTTATTTTTTGAAGTAAAGCAATTGGTATTTATAAATGAAATAAC
1 AAATCCCATAATTTACGACACTTATTTTTTGAAGTAAAGCAATTGGTATTTATAAATGAAATAAC
* * * * *
43133872 TAAAACTGAATAGTTATATCACACTAGTTGTATCAC-AAAAGAAAATGAATCGTTCGGCCT-AAA
66 TAAAACTGAACAGTTACATCACACTAGTTGTATCACAAAAAGAAAATGAACCGTTCAGCTTGAAA
* * * *
43133935 AAAAAAACCAACTGTTAAATAATGTTAGGGTGAAA-TGTCATTCGAAGCATCAAAAACATTCCTA
131 AAAAAAGCCAACTGTTGAATAACGTTA-GGTGAAACT-TCATTTGAAGCATCAAAAACATTCCTA
* * **
43133999 GGCCTTTCAACTCCAATGTATACTAAAGGTAACAAATTTCGGAGACTCTCTGCATACCTGGCCTC
194 GGCCTTTCAACTCCAATGTATCCTGAAGGTAACAAATTTCGGAGACTCTCCACATACCTGGCCTC
* * * * * *
43134064 CACCGTGGCCTAATATGGGGGTCCGTCCACCATCGGTCCTCCTCTGCTGCAGTAGCAAATGTAAG
259 CACCGTGGTCTAATATGGGGGTCCGTCCACCATCGGTCCTCCTCTACTGTAGCAGAAAACGTAAG
* * *
43134129 CACTCCTTGAGTCAGATAAATTGTTTTACCTCTATTTAATCATTCTATTGCTAAAAAGGTGAGCC
324 CACTCCTTGAGTTAGATAAATTGTTTT-CCTCTCTTTAATCATTCTGTTGCTAAAAAGGTGAGCC
* ** * *
43134194 ACACTATTCGTCTTTCTTGGTGCATGCCTAAAATAATAGTGACTGTAGCTTTCCCGTAGCTATTT
388 ACACCATTCGTCTTTCTTGGTGCATGCC-AAAAGGACAGTGACTGTAGCTTTCCCGTAGCGATTT
* * *
43134259 TGAGTTTCTTATATACGGACAAATGGTAGATCTATCCACCCTATTTGCAAGAAGCTTTTTACAAT
452 TGAGTTTCTTATATACGAACAAATGGTAGATCTATCCACCCTATCTGCAAGAAGCTTTTTACAAA
* *
43134324 TTTCAAAGCGTCCCCTTCTATTTCCACCTCCTAAAACCCCAAATCTAATCCCATATGCACCACCT
517 TATCAAAGCGTCCCCTTCTATTTCCACCTCCTAAAACCCCAAATCTAATCCCATCTGCACCACCT
* * * * ** * *
43134389 AGTAACATGTAAGGGCTTTTACAACAAATGACAAATATATATAGTCATTAACTACTAATCTGGAA
582 GGTAACATGCAAGGGCTTCTACAACAAACGACAAAGGTATATGGTTATTAACTACTAATCTGGAA
* *
43134454 CCCAAGACTCTCTCGTTTGCATTCCTAAACACTAATCTTATGTAGGACTTCATGAAATGATTTTG
647 CCCAAGACTCTCTCGTTTGCATTCCTAAACACTAATCTTGTGCAGGACTTCATGAAATGATTTTG
* * * *
43134519 AGATCCTATAATTTACGACACTTATTTTTTAAAGTAAAGCAATTGGTATTTATAAATAAAATAAC
1 AAATCCCATAATTTACGACACTTATTTTTTGAAGTAAAGCAATTGGTATTTATAAATGAAATAAC
* *
43134584 TAAAATTGAACAGTTACATCACACTAGTTGTATCACAAAAAGAAAATGAACCGTTCATCTTGAAA
66 TAAAACTGAACAGTTACATCACACTAGTTGTATCACAAAAAGAAAATGAACCGTTCAGCTTGAAA
* *
43134649 AAAAAAGCCAATTGTTGAATAACGTTATGGTGAAACTTCATTTGAAGCATAAAAAACATTCCTAG
131 AAAAAAGCCAACTGTTGAATAACGTTA-GGTGAAACTTCATTTGAAGCATCAAAAACATTCCTAG
43134714 GCCTTTCAACTCCAATGTATCCTGAAGGTAACAAATTTCGGAGACTCTCCACATACCTGGCCTCC
195 GCCTTTCAACTCCAATGTATCCTGAAGGTAACAAATTTCGGAGACTCTCCACATACCTGGCCTCC
* * * * *
43134779 ACCGTTGTCTAATATGGTGGGTCCATCCACCATTGGTCCTCCTCTACTATAGCAAAAAACGTAAG
260 ACCGTGGTCTAATATGG-GGGTCCGTCCACCATCGGTCCTCCTCTACTGTAGCAGAAAACGTAAG
* *
43134844 CACTCCTTGAGTTAGATAAATTGTTTGTCCTCTCTTTAATCTTTCTGTTGCTAAAAAGGTGAGCT
324 CACTCCTTGAGTTAGATAAATTGTTT-TCCTCTCTTTAATCATTCTGTTGCTAAAAAGGTGAGCC
* * * * *
43134909 ACACGATTTGTCTTTCTCGGTGCATGCCAAAAAGGACAATGACTGTAGCTTTCCCGTAGCGATAT
388 ACACCATTCGTCTTTCTTGGTGCATGCC-AAAAGGACAGTGACTGTAGCTTTCCCGTAGCGATTT
* *
43134974 TGAGTTTCTTATATATGCACAAATGGTAGATCTATCCACCCTATCTGCAAGAAGCTTTTTACAAA
452 TGAGTTTCTTATATACGAACAAATGGTAGATCTATCCACCCTATCTGCAAGAAGCTTTTTACAAA
* * * *
43135039 TGTCAAAGCATCCCCTTCTATTTCCACCTCCTAAAACCCCAAATCTAATCCTATCTGGACCACCT
517 TATCAAAGCGTCCCCTTCTATTTCCACCTCCTAAAACCCCAAATCTAATCCCATCTGCACCACCT
43135104 GGTAACATGCAAGGGCTTCTACAACAAACGACAAAGGTATATGGTTATTAACTACTAATCTGGAA
582 GGTAACATGCAAGGGCTTCTACAACAAACGACAAAGGTATATGGTTATTAACTACTAATCTGGAA
* *
43135169 CCCAAGACTTTCTCGTTTGCATTCCTAAACACTAATCTTGTGCAGGACTTCATGAAACGATTTT
647 CCCAAGACTCTCTCGTTTGCATTCCTAAACACTAATCTTGTGCAGGACTTCATGAAATGATTTT
43135233 AAAAAGCAGC
Statistics
Matches: 1265, Mismatches: 150, Indels: 19
0.88 0.10 0.01
Matches are distributed among these distances:
711 3 0.00
712 708 0.56
713 28 0.02
714 135 0.11
715 390 0.31
716 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (711 bp):
AAATCCCATAATTTACGACACTTATTTTTTGAAGTAAAGCAATTGGTATTTATAAATGAAATAAC
TAAAACTGAACAGTTACATCACACTAGTTGTATCACAAAAAGAAAATGAACCGTTCAGCTTGAAA
AAAAAAGCCAACTGTTGAATAACGTTAGGTGAAACTTCATTTGAAGCATCAAAAACATTCCTAGG
CCTTTCAACTCCAATGTATCCTGAAGGTAACAAATTTCGGAGACTCTCCACATACCTGGCCTCCA
CCGTGGTCTAATATGGGGGTCCGTCCACCATCGGTCCTCCTCTACTGTAGCAGAAAACGTAAGCA
CTCCTTGAGTTAGATAAATTGTTTTCCTCTCTTTAATCATTCTGTTGCTAAAAAGGTGAGCCACA
CCATTCGTCTTTCTTGGTGCATGCCAAAAGGACAGTGACTGTAGCTTTCCCGTAGCGATTTTGAG
TTTCTTATATACGAACAAATGGTAGATCTATCCACCCTATCTGCAAGAAGCTTTTTACAAATATC
AAAGCGTCCCCTTCTATTTCCACCTCCTAAAACCCCAAATCTAATCCCATCTGCACCACCTGGTA
ACATGCAAGGGCTTCTACAACAAACGACAAAGGTATATGGTTATTAACTACTAATCTGGAACCCA
AGACTCTCTCGTTTGCATTCCTAAACACTAATCTTGTGCAGGACTTCATGAAATGATTTTG
Found at i:43149103 original size:15 final size:15
Alignment explanation
Indices: 43149083--43149111 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
43149073 TAAATCATCC
43149083 TATGTATTGATATTG
1 TATGTATTGATATTG
43149098 TATGTATTGATATT
1 TATGTATTGATATT
43149112 TCTTACTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (15 bp):
TATGTATTGATATTG
Found at i:43159408 original size:11 final size:11
Alignment explanation
Indices: 43159389--43159417 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
43159379 ATACCTGTGA
43159389 AAAAT-AAAAT
1 AAAATAAAAAT
43159399 AAAATAAAAAT
1 AAAATAAAAAT
43159410 AAAATAAA
1 AAAATAAA
43159418 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:43167110 original size:15 final size:15
Alignment explanation
Indices: 43167090--43167123 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
43167080 ATGAATGATA
43167090 GAGATAGACCCATTC
1 GAGATAGACCCATTC
43167105 GAGATAGACCCATTC
1 GAGATAGACCCATTC
43167120 GAGA
1 GAGA
43167124 GCATGTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (15 bp):
GAGATAGACCCATTC
Found at i:43170107 original size:35 final size:35
Alignment explanation
Indices: 43170058--43170231 Score: 141
Period size: 35 Copynumber: 4.9 Consensus size: 35
43170048 AATACACATG
* * *
43170058 GTTCATTACATCATCACATATGGCCGAATATACAA
1 GTTCAATATATCATCACATGTGGCCGAATATACAA
* * * ** *
43170093 GTACAATATATCATCATATATGATCGAATATACAT
1 GTTCAATATATCATCACATGTGGCCGAATATACAA
* * * * *
43170128 GTTCAATAAAACATCACATGTAGTCGAATATTCAA
1 GTTCAATATATCATCACATGTGGCCGAATATACAA
* * * *
43170163 GTTTAATATAACATCACATGTGGCCAAATATATAAAA
1 GTTCAATATATCATCACATGTGGCC-GA-ATATACAA
* * *
43170200 GTTCAATACATCATCACTTGTGGCCAAATATA
1 GTTCAATATATCATCACATGTGGCCGAATATA
43170232 TATAAGTTCA
Statistics
Matches: 110, Mismatches: 27, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
35 80 0.73
36 3 0.03
37 27 0.25
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (35 bp):
GTTCAATATATCATCACATGTGGCCGAATATACAA
Found at i:43170164 original size:70 final size:71
Alignment explanation
Indices: 43170045--43170178 Score: 162
Period size: 70 Copynumber: 1.9 Consensus size: 71
43170035 ACTTAGATGG
* * * * *
43170045 TCGAATACACATGGTTCATTACATCATCACATATGGCCGAATATACAAGTACAATATATCATCAT
1 TCGAATACACATGGTTCAATAAAACATCACATATAGCCGAATATACAAGTACAATATAACATCAT
43170110 ATATGA
66 ATATGA
* * * * **
43170116 TCGAATATACAT-GTTCAATAAAACATCACATGTAGTCGAATATTCAAGTTTAATATAACATCA
1 TCGAATACACATGGTTCAATAAAACATCACATATAGCCGAATATACAAGTACAATATAACATCA
43170179 CATGTGGCCA
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
70 41 0.79
71 11 0.21
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (71 bp):
TCGAATACACATGGTTCAATAAAACATCACATATAGCCGAATATACAAGTACAATATAACATCAT
ATATGA
Found at i:43170215 original size:37 final size:37
Alignment explanation
Indices: 43170174--43170245 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
43170164 TTTAATATAA
43170174 CATCACATGTGGCCAAATATATAAAAGTTCAATACAT
1 CATCACATGTGGCCAAATATATAAAAGTTCAATACAT
* *
43170211 CATCACTTGTGGCCAAATATATATAAGTTCAATAC
1 CATCACATGTGGCCAAATATATAAAAGTTCAATAC
43170246 CTATGTGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (37 bp):
CATCACATGTGGCCAAATATATAAAAGTTCAATACAT
Found at i:43177122 original size:35 final size:35
Alignment explanation
Indices: 43177075--43177151 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
43177065 GGTTCGTTAT
*
43177075 ATCATCAAATATGGCCGAATATACAAGTACAATAA
1 ATCATCAAATATGACCGAATATACAAGTACAATAA
* *
43177110 ATCATCATATATGACCGAATATACAAGTTCAATAA
1 ATCATCAAATATGACCGAATATACAAGTACAATAA
*
43177145 AACATCA
1 ATCATCA
43177152 CATGCAGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.25
Consensus pattern (35 bp):
ATCATCAAATATGACCGAATATACAAGTACAATAA
Found at i:43180974 original size:22 final size:22
Alignment explanation
Indices: 43180949--43180999 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
43180939 GGTGGTCTGG
* *
43180949 CGGTTGTCTGGTGGTGGTCCAA
1 CGGTGGTCAGGTGGTGGTCCAA
* *
43180971 CGGTGGTGAGGTGGTGGTTCAA
1 CGGTGGTCAGGTGGTGGTCCAA
43180993 CGGTGGT
1 CGGTGGT
43181000 GTGGTTAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.10, C:0.14, G:0.47, T:0.29
Consensus pattern (22 bp):
CGGTGGTCAGGTGGTGGTCCAA
Found at i:43181000 original size:22 final size:22
Alignment explanation
Indices: 43180958--43181000 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
43180948 GCGGTTGTCT
43180958 GGTGGTGGTCCAACGGTGGTGA
1 GGTGGTGGTCCAACGGTGGTGA
*
43180980 GGTGGTGGTTCAACGGTGGTG
1 GGTGGTGGTCCAACGGTGGTG
43181001 TGGTTAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.12, C:0.12, G:0.51, T:0.26
Consensus pattern (22 bp):
GGTGGTGGTCCAACGGTGGTGA
Found at i:43183350 original size:29 final size:29
Alignment explanation
Indices: 43183308--43183364 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
43183298 TCTATATATG
43183308 TCCATTTTTGTCCATGAAAACCTAATGGC
1 TCCATTTTTGTCCATGAAAACCTAATGGC
*
43183337 TCCATTTTTTTCCATGAAAACCTAATGG
1 TCCATTTTTGTCCATGAAAACCTAATGG
43183365 TCTAATTACC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (29 bp):
TCCATTTTTGTCCATGAAAACCTAATGGC
Found at i:43186600 original size:46 final size:45
Alignment explanation
Indices: 43186455--43186607 Score: 177
Period size: 46 Copynumber: 3.3 Consensus size: 45
43186445 TGAACTCAGA
*
43186455 TCAACGAGTTCGGGCATTTGCATCCATAAGTGAACTCGGACTCAAC
1 TCAACGAGTTCGGACA-TTGCATCCATAAGTGAACTCGGACTCAAC
* * * *
43186501 TCAACGAGCTCGGATGCCTAGTTACAT-C-TCA-CGAACTCGGACTCAAC
1 TCAACGAGTTCGGA---C-A-TTGCATCCATAAGTGAACTCGGACTCAAC
43186548 TCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAC
1 TCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAAC
43186594 TCAACGAGTTCGGA
1 TCAACGAGTTCGGA
43186608 TGCTCAACCA
Statistics
Matches: 89, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 41 0.46
47 28 0.31
48 2 0.02
49 2 0.02
50 6 0.07
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
TCAACGAGTTCGGACATTGCATCCATAAGTGAACTCGGACTCAAC
Found at i:43186626 original size:46 final size:44
Alignment explanation
Indices: 43186483--43186626 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
43186473 TGCATCCATA
*
43186483 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
43186530 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
43186576 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
43186622 AGTGA
1 AGTGA
43186627 CATGTCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.42
47 30 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:43189600 original size:50 final size:52
Alignment explanation
Indices: 43189474--43189756 Score: 196
Period size: 50 Copynumber: 5.6 Consensus size: 52
43189464 AGCTATCTGG
* * * * *
43189474 TACACATAGTAGCCTGCACTTAGA-ACTA-ACATGCGACC--AACAATCCGG-
1 TACACGTAGTAGCCTGCACTTA-ATACTACACACGTGACCTAAACCATCAGGA
*
43189522 TACACGTAGTAGCCTGCACTT-ATGACTACACACGTGACCT-AACCAT-ATGA
1 TACACGTAGTAGCCTGCACTTAAT-ACTACACACGTGACCTAAACCATCAGGA
* * * ** * *
43189572 TACACGTAGTAGCCTTCACTTAATACTACACACGTGA-TTGAA-GTTGCCGGG
1 TACACGTAGTAGCCTGCACTTAATACTACACACGTGACCTAAACCAT-CAGGA
** * * * *
43189623 TAGGCATAGTAGCCTGCACTTAATACTACACATGCGACCT-AACTATCAGGA
1 TACACGTAGTAGCCTGCACTTAATACTACACACGTGACCTAAACCATCAGGA
* * **
43189674 -ACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATC-TTA
1 TACACGTAGTAGCCTGCACTTAATACTACACACGTGACCT-AAACCATCAGGA
* * * *
43189725 AACACATAGTAGCCTGCACATAGTACTACACA
1 TACACGTAGTAGCCTGCACTTAATACTACACA
43189757 TGTGTTCTCA
Statistics
Matches: 184, Mismatches: 37, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
46 1 0.01
48 24 0.13
49 11 0.06
50 72 0.39
51 40 0.22
52 36 0.20
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (52 bp):
TACACGTAGTAGCCTGCACTTAATACTACACACGTGACCTAAACCATCAGGA
Found at i:43189651 original size:101 final size:101
Alignment explanation
Indices: 43189528--43189709 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 101
43189518 CCGGTACACG
* * *
43189528 TAGTAGCCTGCACTTATGACTACACACGTGACCTAACCAT-ATGATACACGTAGTAGCCTTCACT
1 TAGTAGCCTGCACTTATGACTACACACGCGACCTAACCATCAGGA-ACACGTAGTAGCCTGCACT
43189592 TAATACTACACACGTGATTGAAGTTGCCGGGTAGGCA
65 TAATACTACACACGTGATTGAAGTTGCCGGGTAGGCA
* * *
43189629 TAGTAGCCTGCACTTAAT-ACTACACATGCGACCTAACTATCAGGAACATGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTT-ATGACTACACACGCGACCTAACCATCAGGAACACGTAGTAGCCTGCACT
*
43189693 TAGTACTACACACGTGA
65 TAATACTACACACGTGA
43189710 CCTAAAACCA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
101 67 0.93
102 5 0.07
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (101 bp):
TAGTAGCCTGCACTTATGACTACACACGCGACCTAACCATCAGGAACACGTAGTAGCCTGCACTT
AATACTACACACGTGATTGAAGTTGCCGGGTAGGCA
Found at i:43193618 original size:171 final size:171
Alignment explanation
Indices: 43193333--43193669 Score: 611
Period size: 171 Copynumber: 2.0 Consensus size: 171
43193323 ATTATGGCTG
43193333 CTGTCCAAAACTGTTTGTGTAAATTAACGATACTAAGTTTATCACACCATATTAATTCATTTTCA
1 CTGTCCAAAACTGTTTGTGTAAATTAACGATACTAAGTTTATCACACCATATTAATTCATTTTCA
*
43193398 CCACATTGGTAAGGTTACATATTCATACATCATAAGTATAGACCTATAATCACAAGGTCATAACA
66 CCACATTGGTAAGGTTACATATTCATAAATCATAAGTATAGACCTATAATCACAAGGTCATAACA
* *
43193463 AAATCATTTTCATAAGCCTGAATTACCTATTTACATATTTT
131 AAATCATTCTCATAAGCATGAATTACCTATTTACATATTTT
43193504 CTGTCCAAAACTGTTTGTGTAAATTAACGATACTAAGTTTATCACACCATATTAATTCATTTTCA
1 CTGTCCAAAACTGTTTGTGTAAATTAACGATACTAAGTTTATCACACCATATTAATTCATTTTCA
* * *
43193569 CCACATTGGTAAGGTTACATATTCATAAATCATAAGTATAGACCTATAATCACAAGTTCATCACC
66 CCACATTGGTAAGGTTACATATTCATAAATCATAAGTATAGACCTATAATCACAAGGTCATAACA
*
43193634 AAATCATTCTCATAAGCATGAATTGCCTATTTACAT
131 AAATCATTCTCATAAGCATGAATTACCTATTTACAT
43193670 CTTCACTAAA
Statistics
Matches: 159, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
171 159 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.35
Consensus pattern (171 bp):
CTGTCCAAAACTGTTTGTGTAAATTAACGATACTAAGTTTATCACACCATATTAATTCATTTTCA
CCACATTGGTAAGGTTACATATTCATAAATCATAAGTATAGACCTATAATCACAAGGTCATAACA
AAATCATTCTCATAAGCATGAATTACCTATTTACATATTTT
Found at i:43194179 original size:46 final size:43
Alignment explanation
Indices: 43194084--43194204 Score: 145
Period size: 46 Copynumber: 2.7 Consensus size: 43
43194074 GTGCCGATGC
* **
43194084 CATGTCCCAGACATGGTCTTACACTGACACATCTCATAGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCACATCT-ATAGCCAATG
43194129 CATGTCCCAGACATGTCTTACACTGGCTTACATCT-TGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGC--ACATCTAT-A-GCCAATG
*
43194175 CATGTCCTAGACATGTCTTACACTGGCACA
1 CATGTCCCAGACATGTCTTACACTGGCACA
43194205 CAAATAACCC
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
44 16 0.24
45 15 0.22
46 37 0.54
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (43 bp):
CATGTCCCAGACATGTCTTACACTGGCACATCTATAGCCAATG
Found at i:43196511 original size:15 final size:14
Alignment explanation
Indices: 43196465--43196511 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
43196455 AATATAGATA
*
43196465 ATAAGAAAACCAAG
1 ATAAGAAATCCAAG
*
43196479 ATTAAGAAGTCCAAG
1 A-TAAGAAATCCAAG
43196494 ATAGAGAAATCCAAG
1 ATA-AGAAATCCAAG
43196509 ATA
1 ATA
43196512 CAATATCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 3 0.11
15 25 0.89
ACGTcount: A:0.55, C:0.13, G:0.17, T:0.15
Consensus pattern (14 bp):
ATAAGAAATCCAAG
Found at i:43199102 original size:36 final size:36
Alignment explanation
Indices: 43199062--43199141 Score: 142
Period size: 36 Copynumber: 2.2 Consensus size: 36
43199052 AGTAGCATGT
43199062 ACTTAGTACAACACACGTGACCTAATCATCTGATAC
1 ACTTAGTACAACACACGTGACCTAATCATCTGATAC
*
43199098 ACTTAGTACAACACACGTGACCTAATCATCTTATAC
1 ACTTAGTACAACACACGTGACCTAATCATCTGATAC
*
43199134 ACGTAGTA
1 ACTTAGTA
43199142 GCCTGCACTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.26
Consensus pattern (36 bp):
ACTTAGTACAACACACGTGACCTAATCATCTGATAC
Found at i:43199255 original size:50 final size:51
Alignment explanation
Indices: 43199097--43199319 Score: 209
Period size: 50 Copynumber: 4.4 Consensus size: 51
43199087 TCATCTGATA
* * * * *
43199097 CACTTAGTACAACACACGTGACCTAATC-ATCTTATACACGTAGTAGCCTG
1 CACTTAGTACTACACATGTGACCTAAACTATCTGATACACATAGTAGCCTG
* * ** * * * * *
43199147 CACTTAGTACTACACACGTGA-TTGAAGTTGTCGGGTACGCATTGTAGCCTG
1 CACTTAGTACTACACATGTGACCT-AAACTATCTGATACACATAGTAGCCTG
* * *
43199198 CACTTAGTACTACACATGCGACCT-AACTATCTGGTACACGTAGTAGCCTG
1 CACTTAGTACTACACATGTGACCTAAACTATCTGATACACATAGTAGCCTG
* * *
43199248 CACTTAGTACTACAGATGTGACCTAAAACTATCTTAAACACATAGTAGCCTG
1 CACTTAGTACTACACATGTGACCT-AAACTATCTGATACACATAGTAGCCTG
* *
43199300 CACATAGTATTACACATGTG
1 CACTTAGTACTACACATGTG
43199320 TTCTCATAAT
Statistics
Matches: 138, Mismatches: 30, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
49 1 0.01
50 63 0.46
51 34 0.25
52 40 0.29
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (51 bp):
CACTTAGTACTACACATGTGACCTAAACTATCTGATACACATAGTAGCCTG
Found at i:43201577 original size:42 final size:42
Alignment explanation
Indices: 43201473--43201579 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
43201463 ATTCCTTGTG
* * *
43201473 AGACCATATCTGGGATATGGAATCGGTATGTGATTTCGTATA
1 AGACCATATCAGGGATATGGCATCGGTATGTGATTTCATATA
* * * * *
43201515 AGACCATGTTAGGGACATGGCGTCGGTATGATG-TTTCATGTA
1 AGACCATATCAGGGATATGGCATCGGTATG-TGATTTCATATA
* *
43201557 AGACCATATCCGGGGTATGGCAT
1 AGACCATATCAGGGATATGGCAT
43201580 TGATACGGTA
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
42 48 0.96
43 2 0.04
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (42 bp):
AGACCATATCAGGGATATGGCATCGGTATGTGATTTCATATA
Found at i:43209010 original size:29 final size:30
Alignment explanation
Indices: 43208943--43209010 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
43208933 TCTGCCTGAA
*
43208943 ATACATGAAAATGATGATATATGATAATTG
1 ATACATGAAAATGATGAGATATGATAATTG
* * *
43208973 ATATATGAAAGT-ATGAGATGATGATATTTG
1 ATACATGAAAATGATGAGAT-ATGATAATTG
43209003 -TACATGAA
1 ATACATGAA
43209011 CTTTATTTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 13 0.41
30 19 0.59
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.34
Consensus pattern (30 bp):
ATACATGAAAATGATGAGATATGATAATTG
Found at i:43211660 original size:43 final size:43
Alignment explanation
Indices: 43211513--43211662 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 43
43211503 TATCCCAGAT
** * * *
43211513 ATGGTCTTACATGTTATAACAT-ATGATGCCGATAG-CCC-AAC
1 ATGGTCTTACACATAATCACATAATGATGCCAAT-GTCCCAAAC
* * * *
43211554 TATGGTCTTACACGA-AATCAAATAACGATGCCAATGTCCTAGAC
1 -ATGGTCTTACAC-ATAATCACATAATGATGCCAATGTCCCAAAC
*
43211598 ATGGTCTTATACATAATCACATAATGATGCCAATGTCCCAAAC
1 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAAAC
43211641 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
43211663 CTCGTTAATC
Statistics
Matches: 88, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 18 0.20
43 68 0.77
44 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAAAC
Found at i:43218971 original size:43 final size:43
Alignment explanation
Indices: 43218923--43219008 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
43218913 CTATAATTCC
43218923 ATAGATGAGTTACCATAAAAATCTACATACTTTTATTAATGGT
1 ATAGATGAGTTACCATAAAAATCTACATACTTTTATTAATGGT
43218966 ATAGATGAGTTACCATAAAAATCTACATACTTTTATTAATGGT
1 ATAGATGAGTTACCATAAAAATCTACATACTTTTATTAATGGT
43219009 CTAATTACCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (43 bp):
ATAGATGAGTTACCATAAAAATCTACATACTTTTATTAATGGT
Found at i:43219375 original size:18 final size:18
Alignment explanation
Indices: 43219352--43219386 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
43219342 TTGTTTCCTC
43219352 CGGTTCCCAGGTACCCTT
1 CGGTTCCCAGGTACCCTT
43219370 CGGTTCCCAGGTACCCT
1 CGGTTCCCAGGTACCCT
43219387 CCTCAATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.40, G:0.23, T:0.26
Consensus pattern (18 bp):
CGGTTCCCAGGTACCCTT
Found at i:43234072 original size:55 final size:54
Alignment explanation
Indices: 43233948--43234101 Score: 186
Period size: 55 Copynumber: 2.8 Consensus size: 54
43233938 TAAATTGTAC
* *
43233948 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGA-AATAAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCGAGTATAAATATG
* * * *
43234001 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTATAAATATG
* * *
43234056 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
43234102 TGATTGTATA
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
53 1 0.01
54 35 0.41
55 49 0.57
56 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTATAAATATG
Found at i:43234089 original size:82 final size:81
Alignment explanation
Indices: 43233949--43234104 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
43233939 AAATTGTACA
* * * *
43233949 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATAAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATAAATACGATGCACTAAGTGT
43234014 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** * *
43234030 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAGT
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATAAATACGAT-GCACTAAGT
*
43234094 GTGCGAGTTGA
64 GTGCGAATTGA
43234105 TTGTATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 18 0.28
82 46 0.72
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATAAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:43234106 original size:27 final size:27
Alignment explanation
Indices: 43233949--43234104 Score: 154
Period size: 27 Copynumber: 5.7 Consensus size: 27
43233939 AAATTGTACA
*
43233949 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* * *
43233976 GCACTAAGTGTGCGAAATAAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
43234003 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
43234030 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
43234058 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
43234085 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
43234105 TTGTATAGCA
Statistics
Matches: 106, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
27 81 0.76
28 25 0.24
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:43234115 original size:27 final size:27
Alignment explanation
Indices: 43233948--43234125 Score: 144
Period size: 27 Copynumber: 6.6 Consensus size: 27
43233938 TAAATTGTAC
*
43233948 AGCACTAAGTGTGCGA-TTCGACTATGT
1 AGCACTAAGTGTGCGAGTT-GATTATGT
* ** * *
43233975 TGCACTAAGTGTGCGAAATAAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* ** *
43234001 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
43234029 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
43234057 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
43234084 GGCACTAAGTGTGCGAGTTGATTGTAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
43234111 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43234126 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
27 98 0.81
28 23 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:43234116 original size:82 final size:81
Alignment explanation
Indices: 43233941--43234125 Score: 201
Period size: 82 Copynumber: 2.3 Consensus size: 81
43233931 GCGGGATTAA
* * * *
43233941 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATAAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATAAATACGATGCA
43234006 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** * *
43234022 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATAAATACGAT-G
*
43234086 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
43234104 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
43234126 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 21, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
81 21 0.26
82 60 0.74
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATAAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:43239919 original size:56 final size:58
Alignment explanation
Indices: 43239822--43239966 Score: 154
Period size: 56 Copynumber: 2.5 Consensus size: 58
43239812 ATATGATAGG
* * *
43239822 ATTACCAGTCCAGACTAAATCCTTTATATAGCGAATGCTCAAAAAGC-TTG-ATTAGA
1 ATTACCAGTCCAGGCTAAATCCTTTATATAACGAATACTCAAAAAGCATTGTATTAGA
* * * *
43239878 ATTACCAGTCCAGGCTAAATCCTAATT-T-TAACGCATACTCAAGAGGCATTGTATTAGG
1 ATTACCAGTCCAGGCTAAATCCT--TTATATAACGAATACTCAAAAAGCATTGTATTAGA
* **
43239936 ATTACCCGTTAAGGCTAAATCCTTTATATAA
1 ATTACCAGTCCAGGCTAAATCCTTTATATAA
43239967 TAAGGTCATT
Statistics
Matches: 73, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
56 38 0.52
57 5 0.07
58 30 0.41
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.30
Consensus pattern (58 bp):
ATTACCAGTCCAGGCTAAATCCTTTATATAACGAATACTCAAAAAGCATTGTATTAGA
Found at i:43243695 original size:23 final size:22
Alignment explanation
Indices: 43243643--43243700 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 22
43243633 TTCTTTATTT
* *
43243643 TATATATGATAGCATACATACA
1 TATATATAATAACATACATACA
* * *
43243665 CATCATATCATAACATATCATATA
1 TAT-ATATAATAACATA-CATACA
43243689 TATATATAATAA
1 TATATATAATAA
43243701 AATAGAATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 2 0.07
23 19 0.68
24 7 0.25
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.34
Consensus pattern (22 bp):
TATATATAATAACATACATACA
Found at i:43247708 original size:54 final size:54
Alignment explanation
Indices: 43247626--43247735 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
43247616 CAATTATGTC
*
43247626 ATATTGATTAAACTTACTTTTCAAAAATCGTGCATTGGAATTTTTTACCTTTTA
1 ATATTGATTAAACTTACTTTTCAAAAATCGCGCATTGGAATTTTTTACCTTTTA
43247680 ATATTGATTAAACTTACTTTTCAAAAATCGCGCATTGGAATTTTTTACCTTTTA
1 ATATTGATTAAACTTACTTTTCAAAAATCGCGCATTGGAATTTTTTACCTTTTA
43247734 AT
1 AT
43247736 TGTTCTTAGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (54 bp):
ATATTGATTAAACTTACTTTTCAAAAATCGCGCATTGGAATTTTTTACCTTTTA
Found at i:43251262 original size:27 final size:27
Alignment explanation
Indices: 43251202--43251264 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
43251192 CTGACTTTTG
* * *
43251202 TTGGGTGTTGTTTTGCTTTTGTTTGGT
1 TTGGGTTTTGTTCTACTTTTGTTTGGT
43251229 TTGGGTTTTGTTCTACTTTTG-TTGTGT
1 TTGGGTTTTGTTCTACTTTTGTTTG-GT
43251256 TTGGGTTTT
1 TTGGGTTTT
43251265 ATTTGTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 3 0.09
27 29 0.91
ACGTcount: A:0.02, C:0.05, G:0.30, T:0.63
Consensus pattern (27 bp):
TTGGGTTTTGTTCTACTTTTGTTTGGT
Found at i:43251348 original size:11 final size:11
Alignment explanation
Indices: 43251330--43251363 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
43251320 TCAAAAAATA
43251330 AAAATAATTTT
1 AAAATAATTTT
*
43251341 ACAATAATTTT
1 AAAATAATTTT
43251352 AAAATAATTTT
1 AAAATAATTTT
43251363 A
1 A
43251364 GTAACAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:43251372 original size:23 final size:22
Alignment explanation
Indices: 43251330--43251372 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
43251320 TCAAAAAATA
*
43251330 AAAATAATTTTACAATAATTTT
1 AAAATAATTTTACAACAATTTT
*
43251352 AAAATAATTTTAGTAACAATT
1 AAAATAATTTTA-CAACAATT
43251373 AGTTCTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (22 bp):
AAAATAATTTTACAACAATTTT
Found at i:43252702 original size:15 final size:15
Alignment explanation
Indices: 43252660--43252704 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
43252650 AACGATAACA
43252660 TAAGTGACTAAAATG
1 TAAGTGACTAAAATG
* *
43252675 TAA-T--TTCAAATG
1 TAAGTGACTAAAATG
43252687 TAAGTGACTAAAATG
1 TAAGTGACTAAAATG
43252702 TAA
1 TAA
43252705 TCTGAGCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 6
0.70 0.12 0.18
Matches are distributed among these distances:
12 9 0.39
13 1 0.04
14 1 0.04
15 12 0.52
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.31
Consensus pattern (15 bp):
TAAGTGACTAAAATG
Found at i:43255581 original size:49 final size:49
Alignment explanation
Indices: 43255508--43255734 Score: 283
Period size: 49 Copynumber: 4.6 Consensus size: 49
43255498 CTAGTACGCA
* *
43255508 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* * * ** * *
43255557 TAGTAGTCTGCACTTAGTATTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * *
43255607 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* *
43255658 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
43255707 TAGTAGCCTGCACTTAGTACTACACACG
1 TAGTAGCCTGCACTTAGTACTACACACG
43255735 TAACCTCACA
Statistics
Matches: 148, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 65 0.44
50 46 0.31
51 37 0.25
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:43255731 original size:100 final size:99
Alignment explanation
Indices: 43255508--43255735 Score: 287
Period size: 100 Copynumber: 2.3 Consensus size: 99
43255498 CTAGTACGCA
* * * * * * *
43255508 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGTCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCGGTACACATAGTAGCCTACACTTA
* * *
43255573 GTATTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCCGATACACG
* *
43255607 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTACGCATAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TTATCCGGTACACATAGTAGCCTACACT
* ** *
43255672 TAGTACTACACATGCGACC-AATTATCCGGTACACG
64 TAGTACTACACACGCGACCTAACCATCCGATACACG
43255707 TAGTAGCCTGCACTTAGTACTACACACGT
1 TAGTAGCCTGCACTTAGTACTACACACGT
43255736 AACCTCACAA
Statistics
Matches: 111, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
99 28 0.25
100 44 0.40
101 39 0.35
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCGGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCTAACCATCCGATACACG
Found at i:43257413 original size:14 final size:14
Alignment explanation
Indices: 43257394--43257421 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43257384 TAGATGAATC
43257394 TAACACAAGCTGGT
1 TAACACAAGCTGGT
43257408 TAACACAAGCTGGT
1 TAACACAAGCTGGT
43257422 ATAATAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (14 bp):
TAACACAAGCTGGT
Found at i:43262388 original size:58 final size:57
Alignment explanation
Indices: 43262279--43262448 Score: 191
Period size: 60 Copynumber: 2.9 Consensus size: 57
43262269 TTAATATAAC
* * *
43262279 ATTTGGTACCTGAATTTGACATTTTTTCTAATTTGGTACCTAAACTATTTTT-GGTCCA
1 ATTTGGTACCTAAACTTGACA-TTTTTCTAATTTGGTACTTAAACT-TTTTTGGGTCCA
* * *
43262337 ATTTAGTACCTAAACTTGACACTTTTTCTTAAGTTGGTACTTAAACTTTTTTGGGGTCTA
1 ATTTGGTACCTAAACTTGACA-TTTTTC-TAATTTGGTACTTAAACTTTTTT-GGGTCCA
*
43262397 ATTTGGTACCTAAACTTGACTATTTTTCCTAATTTGGTA-TCTAATCTTTTTT
1 ATTTGGTACCTAAACTTGAC-ATTTTT-CTAATTTGGTACT-TAAACTTTTTT
43262449 TTTTGATTTG
Statistics
Matches: 96, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
58 29 0.30
59 17 0.18
60 48 0.50
61 2 0.02
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (57 bp):
ATTTGGTACCTAAACTTGACATTTTTCTAATTTGGTACTTAAACTTTTTTGGGTCCA
Found at i:43262995 original size:59 final size:61
Alignment explanation
Indices: 43262859--43263004 Score: 190
Period size: 61 Copynumber: 2.4 Consensus size: 61
43262849 TAGGTATAGA
* * * * *
43262859 AAAAAATGTCAAGTTCAGGTACCAGATTGGGCTCAAAAAAAAATTTAGGTAGCAAATTAAG
1 AAAAAATGTCAAGTTCAGGTACCAAACTGAGCTCAAAAAAAAATTTAGATACCAAATTAAG
*
43262920 AAAAATTGTCAAGTTCAGGTACCAAACTGAGC-CAAAAAAAAGA-TTAGATACCAAATT-AG
1 AAAAAATGTCAAGTTCAGGTACCAAACTGAGCTCAAAAAAAA-ATTTAGATACCAAATTAAG
* *
43262979 GAAAAGTGTCAAGTTCAGGTACCAAA
1 AAAAAATGTCAAGTTCAGGTACCAAA
43263005 TGTAATATTA
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
59 26 0.34
60 21 0.28
61 29 0.38
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (61 bp):
AAAAAATGTCAAGTTCAGGTACCAAACTGAGCTCAAAAAAAAATTTAGATACCAAATTAAG
Found at i:43264636 original size:18 final size:18
Alignment explanation
Indices: 43264613--43264651 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
43264603 ACGTTATATG
43264613 AAGCTTGAGAAAGATTTA
1 AAGCTTGAGAAAGATTTA
43264631 AAGCTTGAGAAAGATTTA
1 AAGCTTGAGAAAGATTTA
43264649 AAG
1 AAG
43264652 AACTACTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.05, G:0.23, T:0.26
Consensus pattern (18 bp):
AAGCTTGAGAAAGATTTA
Found at i:43270787 original size:42 final size:42
Alignment explanation
Indices: 43270738--43270884 Score: 152
Period size: 42 Copynumber: 3.5 Consensus size: 42
43270728 TACATGTAAG
* *
43270738 ACCATATCTGGGATATGGCACTGGTATGAGACTTTGTATAAA
1 ACCATATCTGGGATATGGCACCGATATGAGACTTTGTATAAA
* *
43270780 ATCATATCTGGGATATGGCACCGATATGAGATTTTGTATAAA
1 ACCATATCTGGGATATGGCACCGATATGAGACTTTGTATAAA
* * * * * ** * *
43270822 ACCATAGCTAGGCTATTGGCATCGATACGAGA-TTACATGTAAG
1 ACCATATCTGGGATA-TGGCACCGATATGAGACTT-TGTATAAA
43270865 ACCATATCTGGGATATGGCA
1 ACCATATCTGGGATATGGCA
43270885 TTGGTACAGT
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
42 56 0.65
43 30 0.35
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (42 bp):
ACCATATCTGGGATATGGCACCGATATGAGACTTTGTATAAA
Found at i:43274852 original size:40 final size:40
Alignment explanation
Indices: 43274778--43274959 Score: 305
Period size: 40 Copynumber: 4.6 Consensus size: 40
43274768 AACCCAAGTA
* *
43274778 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
43274817 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
43274857 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
43274897 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
43274937 CCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
43274960 CATTCGAATA
Statistics
Matches: 136, Mismatches: 5, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
39 13 0.10
40 122 0.90
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:43280076 original size:40 final size:38
Alignment explanation
Indices: 43279992--43280213 Score: 259
Period size: 40 Copynumber: 5.7 Consensus size: 38
43279982 TTGAATGATG
* * *
43279992 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTA-A
* * *
43280032 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA
43280071 TTCCGGGCTAAGCCCGAAGGCA-TTGTGCGAGTTACTAA
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
*
43280109 TCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AA
*
43280148 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-A
* *
43280188 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
43280214 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
37 20 0.12
38 29 0.18
39 24 0.15
40 82 0.51
41 7 0.04
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (38 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:43290354 original size:39 final size:39
Alignment explanation
Indices: 43290274--43290492 Score: 216
Period size: 39 Copynumber: 5.6 Consensus size: 39
43290264 GCTCCTCGTT
* * *
43290274 CAAATGCCTTCGGACAT-AGCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGACTTAACCCGGATT-TAGTAACTCGCA
43290312 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
43290351 CAAATGCCTTCGGGACTTAACCCGGATTTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAACCCGGA-TTTAGTAACTCGCA
* * * * *
43290392 CCAATGCCTTCGGGCTT-AGCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
43290430 CAAA-GCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
43290470 C-AA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGACTTAACCCGGA
43290493 CATCATTCAA
Statistics
Matches: 155, Mismatches: 19, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
37 8 0.05
38 44 0.28
39 53 0.34
40 26 0.17
41 24 0.15
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:43290398 original size:80 final size:77
Alignment explanation
Indices: 43290274--43290441 Score: 214
Period size: 80 Copynumber: 2.2 Consensus size: 77
43290264 GCTCCTCGTT
* * *
43290274 CAAATGCCTTC-GGACATAGCCGGTTATAGTAACTTGCACAAATGCCTTCGGACTTAACCCGGAT
1 CAAATGCCTTCGGGACATACCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTT-ACCCGGAA
43290338 TTAGTAACTCGCA
65 TTAGTAACTCGCA
* * * * *
43290351 CAAATGCCTTCGGGACTTAACCCGGATTTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCGGA
1 CAAATGCCTTCGGGACAT-ACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGACTTACCCGGA
*
43290416 ATTAGTATCTCGCA
64 ATTAGTAACTCGCA
43290430 CAAA-GCCTTCGG
1 CAAATGCCTTCGG
43290442 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
77 11 0.14
78 13 0.16
79 27 0.34
80 28 0.35
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (77 bp):
CAAATGCCTTCGGGACATACCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTACCCGGAAT
TAGTAACTCGCA
Found at i:43295196 original size:40 final size:40
Alignment explanation
Indices: 43295122--43295343 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
43295112 AACCCAAGTA
* *
43295122 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
43295161 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
43295201 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
43295241 CCTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
43295281 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
43295321 CCTTCGGGACTGAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
43295344 CATTCGAATA
Statistics
Matches: 169, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 12 0.07
40 154 0.91
41 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:43309515 original size:17 final size:17
Alignment explanation
Indices: 43309495--43309535 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
43309485 TTTGAATTTC
43309495 ATAGCTATTTGATACTT
1 ATAGCTATTTGATACTT
43309512 ATAGCTATTTGATACTT
1 ATAGCTATTTGATACTT
43309529 ATAGCTA
1 ATAGCTA
43309536 CTAGAACTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (17 bp):
ATAGCTATTTGATACTT
Found at i:43327248 original size:64 final size:64
Alignment explanation
Indices: 43327166--43327292 Score: 227
Period size: 64 Copynumber: 2.0 Consensus size: 64
43327156 CATTCATAAT
43327166 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATC
1 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATC
* * *
43327230 ACATGTAGTTAGGCGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
43327293 TGATATATGA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (64 bp):
ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATC
Found at i:43327792 original size:177 final size:176
Alignment explanation
Indices: 43327405--43327821 Score: 579
Period size: 177 Copynumber: 2.4 Consensus size: 176
43327395 AGATTACAAG
* *
43327405 CCTTATCTCTTTGAAGTTGCAGAGAGCAGGTTGAAGATACTAGTCTTATCTTCCTGAAGTTGCAG
1 CCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAG
* *
43327470 GAAACAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCG
66 GAAACAGACTGAAAATAACAGATCTTATCTCCATGTATCGGCTACGGAGCAGATCGAAAATGGCG
* *
43327535 ATTCTTATCTCCATGTATCAGCTATGGATCAGATTTTAGCCACCAA
131 AGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAA
* *
43327581 CCTTATCTCTCTGAAGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCA
1 CCTTATCTCTCTGAAGTTGC-AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCA
* * * *
43327646 GGAAGCAGACTGAAAATAACAGATCTTATTTCCATGTATCGGCTACGGAGTAGGTC-AAAGATGG
65 GGAAACAGACTGAAAATAACAGATCTTATCTCCATGTATCGGCTACGGAGCAGATCGAAA-ATGG
* * *
43327710 CGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCATCAG
129 CGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAA
* * * ** *
43327758 CTTTGTCTCTCTGAAGTTGCACTGA-AGTAGGTTGAAG-TCACAAACCTGATCTTCCTGAAGTTG
1 CCTTATCTCTCTGAAGTTGCA--GAGAGCAGGTTGAAGAT-ACAAGTCTTATCTTCCTGAAGTTG
43327821 C
63 C
43327822 TGAAAGACTA
Statistics
Matches: 213, Mismatches: 23, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
176 23 0.11
177 188 0.88
178 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (176 bp):
CCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAG
GAAACAGACTGAAAATAACAGATCTTATCTCCATGTATCGGCTACGGAGCAGATCGAAAATGGCG
AGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAA
Found at i:43333827 original size:15 final size:17
Alignment explanation
Indices: 43333792--43333826 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
43333782 CACAGAATAC
*
43333792 TTTCTTATTGTTCTTTT
1 TTTCGTATTGTTCTTTT
43333809 TTTCGTATT-TTCTTTT
1 TTTCGTATTGTTCTTTT
43333825 TT
1 TT
43333827 CTATATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.06, C:0.11, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTCGTATTGTTCTTTT
Found at i:43333833 original size:16 final size:15
Alignment explanation
Indices: 43333792--43333835 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
43333782 CACAGAATAC
43333792 TTTCTTATTGTTCTTTT
1 TTTCTTATT-TTC-TTT
*
43333809 TTTCGTATTTTCTTT
1 TTTCTTATTTTCTTT
43333824 TTTCTATATTTT
1 TTTCT-TATTTT
43333836 TATCACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 9 0.38
17 8 0.33
ACGTcount: A:0.09, C:0.11, G:0.05, T:0.75
Consensus pattern (15 bp):
TTTCTTATTTTCTTT
Found at i:43345693 original size:41 final size:41
Alignment explanation
Indices: 43345648--43345744 Score: 176
Period size: 41 Copynumber: 2.4 Consensus size: 41
43345638 GATACTTGAA
*
43345648 AACTTGTGTGAGCAGCACCGCATAGCTATGTCTTGACTGAC
1 AACTTGTGTGAGCAGCACCGCATAGCTACGTCTTGACTGAC
*
43345689 AACTTGTGTGAGCAGCACCGCGTAGCTACGTCTTGACTGAC
1 AACTTGTGTGAGCAGCACCGCATAGCTACGTCTTGACTGAC
43345730 AACTTGTGTGAGCAG
1 AACTTGTGTGAGCAG
43345745 ACCTATTGAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (41 bp):
AACTTGTGTGAGCAGCACCGCATAGCTACGTCTTGACTGAC
Found at i:43350779 original size:4 final size:4
Alignment explanation
Indices: 43350770--43350796 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
43350760 AAGCTTAAAT
43350770 TCAA TCAA TCAA TCAA TCAA TCAA TCA
1 TCAA TCAA TCAA TCAA TCAA TCAA TCA
43350797 CAAACTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
TCAA
Found at i:43352633 original size:6 final size:6
Alignment explanation
Indices: 43352616--43352644 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
43352606 TAAATAATGG
43352616 ATGCAT -TGCAT ATGCAT ATGCAT ATGCAT
1 ATGCAT ATGCAT ATGCAT ATGCAT ATGCAT
43352645 GGGAGGGGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (6 bp):
ATGCAT
Found at i:43359561 original size:10 final size:10
Alignment explanation
Indices: 43359546--43359588 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
43359536 CAATTCACCA
43359546 ACCAAATCAT
1 ACCAAATCAT
*
43359556 ACCAAATCTAA
1 ACCAAATC-AT
43359567 ACCAAAATCAT
1 ACC-AAATCAT
*
43359578 ACCAAAGCAT
1 ACCAAATCAT
43359588 A
1 A
43359589 TATTTCAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.54
11 8 0.29
12 5 0.18
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.16
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:43360437 original size:43 final size:43
Alignment explanation
Indices: 43360317--43360474 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
43360307 AGGTCGTACA
* * * *
43360317 ATGCCAACATCCTAGACGTGGTCTTACATGT-AATCAAATATAG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATA-CG
* *
43360360 ATGCC-ACTGTCCTAGATAG-GGTCTTACACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACACGTAAATCAAATACG
*
43360402 ATGCCAACGTCCCAGACGTGTTCTTACACGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AA-TACG
* *
43360446 ATGCCAAAGTCCCAGATGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
43360475 AAAAACACAT
Statistics
Matches: 97, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
41 1 0.01
42 25 0.26
43 39 0.40
44 31 0.32
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATACG
Found at i:43360474 original size:86 final size:85
Alignment explanation
Indices: 43360317--43360474 Score: 194
Period size: 86 Copynumber: 1.8 Consensus size: 85
43360307 AGGTCGTACA
* * ** *
43360317 ATGCCAACATCCTAGACGTGGTCTTACATGTAATCAAATATAGATGCCACTGTCCTAGATAGGGT
1 ATGCCAACATCCCAGACGTGGTCTTACACGTAATCAAATATAGATGCCAAAGTCCCAGATAGGGT
43360382 CTTACACGAAATCAAATACG
66 CTTACACGAAATCAAATACG
* * * *
43360402 ATGCCAACGTCCCAGACGTGTTCTTACACGTAAATCATAA-GTCGATGCCAAAGTCCCAGAT-GT
1 ATGCCAACATCCCAGACGTGGTCTTACACGT-AATCA-AATATAGATGCCAAAGTCCCAGATAG-
43360465 GGTCTTACAC
63 GGTCTTACAC
43360475 AAAAACACAT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
85 28 0.46
86 31 0.51
87 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (85 bp):
ATGCCAACATCCCAGACGTGGTCTTACACGTAATCAAATATAGATGCCAAAGTCCCAGATAGGGT
CTTACACGAAATCAAATACG
Found at i:43370489 original size:23 final size:24
Alignment explanation
Indices: 43370463--43370507 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
43370453 ATATCCCCAC
*
43370463 ATGGAGTATAG-GGTTGGATGGAG
1 ATGGAGTATAGAGGCTGGATGGAG
*
43370486 ATGGAGTGTAGAGGCTGGATGG
1 ATGGAGTATAGAGGCTGGATGG
43370508 GTAGGACTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.24, C:0.02, G:0.49, T:0.24
Consensus pattern (24 bp):
ATGGAGTATAGAGGCTGGATGGAG
Found at i:43374064 original size:42 final size:42
Alignment explanation
Indices: 43373978--43374069 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
43373968 GATTTATGTT
* * * *
43373978 TAAGACCATGTCTAGGACATTGGCATCGTATTTGATTTCGTG
1 TAAGACCATGTCTAGGACAGTGGCATCATATTTGATTACATG
* * *
43374020 TAAGACCCTGTCTGGGATAGTGGCATCAATATTTGA-TACATG
1 TAAGACCATGTCTAGGACAGTGGCATC-ATATTTGATTACATG
43374062 TAAGACCA
1 TAAGACCA
43374070 CATCTGGGAC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 34 0.83
43 7 0.17
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (42 bp):
TAAGACCATGTCTAGGACAGTGGCATCATATTTGATTACATG
Found at i:43376668 original size:5 final size:5
Alignment explanation
Indices: 43376660--43376720 Score: 54
Period size: 5 Copynumber: 11.6 Consensus size: 5
43376650 TAAGTCTAAG
*
43376660 AAAAT AAAAAT AAACAT AAAA- ATAAAT AAAAGT AAAAAT AAAAT AGAAT
1 AAAAT -AAAAT AAA-AT AAAAT A-AAAT AAAA-T -AAAAT AAAAT AAAAT
43376709 AAAAT -AAAT AAA
1 AAAAT AAAAT AAA
43376721 CTCAAAGGTC
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
4 5 0.11
5 25 0.53
6 13 0.28
7 4 0.09
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:43376669 original size:6 final size:6
Alignment explanation
Indices: 43376660--43376702 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
43376650 TAAGTCTAAG
* *
43376660 AAAATA AAAATA AACATA AAAAT- -AAATA AAAGTA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
43376703 TAGAATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 4 0.13
6 27 0.87
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:43376688 original size:16 final size:15
Alignment explanation
Indices: 43376667--43376720 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
43376657 AAGAAAATAA
43376667 AAATAAACATAAAAAT
1 AAATAAA-ATAAAAAT
43376683 AAATAAAAGTAAAAAT
1 AAATAAAA-TAAAAAT
*
43376699 AAAATAGAAT-AAAAT
1 -AAATAAAATAAAAAT
43376714 AAATAAA
1 AAATAAA
43376721 CTCAAAGGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 6 0.18
15 6 0.18
16 15 0.44
17 7 0.21
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.19
Consensus pattern (15 bp):
AAATAAAATAAAAAT
Found at i:43376688 original size:22 final size:21
Alignment explanation
Indices: 43376661--43376716 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
43376651 AAGTCTAAGA
*
43376661 AAATAAAAATAAACATAAAAAT
1 AAATAAAAATAAAAAT-AAAAT
*
43376683 AAATAAAAGTAAAAATAAAAT
1 AAATAAAAATAAAAATAAAAT
43376704 AGAAT-AAAATAAA
1 A-AATAAAAATAAA
43376717 TAAACTCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.18
Consensus pattern (21 bp):
AAATAAAAATAAAAATAAAAT
Found at i:43381905 original size:12 final size:12
Alignment explanation
Indices: 43381880--43381913 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
43381870 ACAGACACGA
43381880 CCGTGTGACATGG
1 CCGTGTG-CATGG
43381893 CCGTGTGCATGG
1 CCGTGTGCATGG
43381905 CCGTGTGCA
1 CCGTGTGCA
43381914 CCCACATGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.67
13 7 0.33
ACGTcount: A:0.12, C:0.26, G:0.38, T:0.24
Consensus pattern (12 bp):
CCGTGTGCATGG
Found at i:43390689 original size:14 final size:15
Alignment explanation
Indices: 43390650--43390693 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 15
43390640 TACTAAAACT
43390650 AATAAAGATAA-AATAA
1 AATAAA-ATAATAAT-A
43390666 AATAAAATAATAATA
1 AATAAAATAATAATA
43390681 AAT-AAATAATAAT
1 AATAAAATAATAAT
43390694 GAGAAAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 10 0.37
15 8 0.30
16 9 0.33
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (15 bp):
AATAAAATAATAATA
Found at i:43394671 original size:5 final size:6
Alignment explanation
Indices: 43394645--43394701 Score: 64
Period size: 6 Copynumber: 9.8 Consensus size: 6
43394635 GAAGAATTAG
* * * *
43394645 AAAACA AAAATT AAATTA AAAATA AAAAT- AAAAT- ACAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
43394691 AAAATA AAAAT
1 AAAATA AAAAT
43394702 GGTTAAATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
5 9 0.21
6 34 0.79
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:43395490 original size:20 final size:20
Alignment explanation
Indices: 43395465--43395504 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
43395455 TAAACCGTGT
*
43395465 GTCACACACGGCCTAGACAC
1 GTCACACACGGCCTAAACAC
43395485 GTCACACACGGCCTAAACAC
1 GTCACACACGGCCTAAACAC
43395505 ATGTCCGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.40, G:0.17, T:0.10
Consensus pattern (20 bp):
GTCACACACGGCCTAAACAC
Found at i:43396537 original size:48 final size:48
Alignment explanation
Indices: 43396459--43396654 Score: 268
Period size: 48 Copynumber: 4.0 Consensus size: 48
43396449 GAAATCACAT
* *
43396459 TCACATAGTCGGATGCCAATGCCATATCCCAGATATGGTCTTACATGGGA
1 TCACATA-TC-GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
* *
43396509 TCACATATCGATGTCAATGCCATGTCCCAGACATGGTCATACATGGTG-
1 TCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGG-GA
* * * *
43396557 TCTCATATTGATGCCAATGCCATGTCTCATACATGGTCTTACATGGGA
1 TCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
* *
43396605 TCACATATCGATGCCAATACCATGTCCCAGACACGGTCTTACATGGGA
1 TCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
43396653 TC
1 TC
43396655 GTGCATATCT
Statistics
Matches: 128, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
47 1 0.01
48 117 0.91
49 3 0.02
50 7 0.05
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (48 bp):
TCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
Found at i:43399496 original size:24 final size:24
Alignment explanation
Indices: 43399468--43399513 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
43399458 GGCTCACTAA
43399468 CAGAAAGCTCATAAGAGCTTAAAT
1 CAGAAAGCTCATAAGAGCTTAAAT
**
43399492 CAGAAAGCTCATGCGAGCTTAA
1 CAGAAAGCTCATAAGAGCTTAA
43399514 TAAGTAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (24 bp):
CAGAAAGCTCATAAGAGCTTAAAT
Found at i:43402479 original size:30 final size:31
Alignment explanation
Indices: 43402445--43402505 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
43402435 TGTGTTTGAA
*
43402445 ATAAT-TATTTAAAATATTTTACATATAAAC
1 ATAATATATTTAAAATATTTCACATATAAAC
* *
43402475 ATAATGATATTTGAAATATTTCACCTATAAA
1 ATAAT-ATATTTAAAATATTTCACATATAAA
43402506 AATATTTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 5 0.19
32 21 0.81
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (31 bp):
ATAATATATTTAAAATATTTCACATATAAAC
Found at i:43403366 original size:16 final size:18
Alignment explanation
Indices: 43403331--43403368 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
43403321 ATCCTTATTT
*
43403331 AAATAAAATACAGTAGTA
1 AAATAAAATACAGAAGTA
43403349 AAATAAAATA-A-AAGTA
1 AAATAAAATACAGAAGTA
43403365 AAAT
1 AAAT
43403369 CCATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAGAAGTA
Found at i:43408055 original size:23 final size:23
Alignment explanation
Indices: 43408028--43408073 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
43408018 CAATATACCA
*
43408028 CATTTTTATCCAATTTCAATCTC
1 CATTTTTAGCCAATTTCAATCTC
43408051 CATTTTTAGCCAATTTCAATCTC
1 CATTTTTAGCCAATTTCAATCTC
43408074 AAAACATGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.46
Consensus pattern (23 bp):
CATTTTTAGCCAATTTCAATCTC
Found at i:43409413 original size:42 final size:43
Alignment explanation
Indices: 43409337--43409474 Score: 138
Period size: 42 Copynumber: 3.2 Consensus size: 43
43409327 TTCCAAACTT
* * * *
43409337 GTCTTACATGTAATCAAATATCGATGTCATTGTCCCAAATAGG
1 GTCTTACACGAAATCAAATATCGATGCCAATGTCCCAAATAGG
* *
43409380 GTCTTACACGAAATCAAATA-CGATGCCAATGTCCCAAACATG
1 GTCTTACACGAAATCAAATATCGATGCCAATGTCCCAAATAGG
* * * *
43409422 GTCTTACATGTAAATCAAA-AGTCAATGCCAACGTCCCAGAT-GTG
1 GTCTTACACG-AAATCAAATA-TCGATGCCAATGTCCCAAATAG-G
43409466 GTCTTACAC
1 GTCTTACAC
43409475 AAAAACACAT
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
42 28 0.36
43 26 0.33
44 24 0.31
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (43 bp):
GTCTTACACGAAATCAAATATCGATGCCAATGTCCCAAATAGG
Found at i:43411772 original size:43 final size:43
Alignment explanation
Indices: 43411711--43411869 Score: 166
Period size: 43 Copynumber: 3.7 Consensus size: 43
43411701 GATTTTCGAG
*
43411711 ATGTGATTATGTGTAAGACCATATCTGGGACATTTGCATCATT
1 ATGTGATTATGTGTAAGACCATATCTGGGACATTAGCATCATT
* *
43411754 ATGTGATTATGTGTAAGACCATGTCTAGGACATTAGCATCATT
1 ATGTGATTATGTGTAAGACCATATCTGGGACATTAGCATCATT
* *
43411797 AAT-TAATT-TCGTGTAAGACCATAGT-TGGG-CTATCAGCATCGA-T
1 -ATGTGATTAT-GTGTAAGACCATA-TCTGGGAC-ATTAGCATC-ATT
* **
43411840 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTATGTGTAAGACCATATCTGGGA
43411870 TATGGCATTG
Statistics
Matches: 96, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
42 5 0.05
43 87 0.91
44 4 0.04
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATATCTGGGACATTAGCATCATT
Found at i:43419165 original size:5 final size:5
Alignment explanation
Indices: 43419155--43419198 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
43419145 TTTGTGTGTT
43419155 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
43419199 CATAGTTAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:43421539 original size:15 final size:16
Alignment explanation
Indices: 43421499--43421540 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
43421489 GTATAGATCG
43421499 ATAATAAAATATATAT
1 ATAATAAAATATATAT
* *
43421515 TTACTAAAA-ATATAT
1 ATAATAAAATATATAT
43421530 AATAATAAAAT
1 -ATAATAAAAT
43421541 TTACTATACT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATAAAATATATAT
Found at i:43423456 original size:25 final size:25
Alignment explanation
Indices: 43423428--43423485 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
43423418 AAATATCCCC
*
43423428 AAAAATATGAAAAATTACAAAATAT
1 AAAAAAATGAAAAATTACAAAATAT
*
43423453 AAAAAAATGAAAAATTACAAAATACC
1 AAAAAAATGAAAAATTACAAAATA-T
43423479 AAAAAAA
1 AAAAAAA
43423486 ATGGAAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 23 0.77
26 7 0.23
ACGTcount: A:0.72, C:0.07, G:0.03, T:0.17
Consensus pattern (25 bp):
AAAAAAATGAAAAATTACAAAATAT
Found at i:43424886 original size:22 final size:22
Alignment explanation
Indices: 43424844--43424891 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
43424834 AAAAATGGCT
*
43424844 AATTTTTTTTAAAATACCATAA
1 AATTTTTTTAAAAATACCATAA
*
43424866 AATTCTTTTTAAAAAT-TCATAA
1 AATT-TTTTTAAAAATACCATAA
43424888 AATT
1 AATT
43424892 ATGAGATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (22 bp):
AATTTTTTTAAAAATACCATAA
Found at i:43425047 original size:20 final size:21
Alignment explanation
Indices: 43425019--43425059 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43425009 GGGTTTTGTA
* *
43425019 TTGC-TTTTTTATGCTTTTTT
1 TTGCATTTTTAATGATTTTTT
43425039 TTGCATTTTTAATGATTTTTT
1 TTGCATTTTTAATGATTTTTT
43425060 AATTATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.12, C:0.07, G:0.10, T:0.71
Consensus pattern (21 bp):
TTGCATTTTTAATGATTTTTT
Found at i:43425084 original size:17 final size:18
Alignment explanation
Indices: 43425054--43425088 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
43425044 TTTTTAATGA
43425054 TTTTTTAATTATTTATAAT
1 TTTTTTAA-TATTTATAAT
43425073 TTTTTTAA-ATTTATAA
1 TTTTTTAATATTTATAA
43425089 ATATTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTTAATATTTATAAT
Found at i:43426771 original size:16 final size:16
Alignment explanation
Indices: 43426749--43426789 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
43426739 AGTTAAAGGT
43426749 ATTAAATAGCTATGAA
1 ATTAAATAGCTATGAA
*
43426765 GTTAAATAGCTATGAA
1 ATTAAATAGCTATGAA
43426781 ATTAAATAG
1 ATTAAATAG
43426790 TGGAAGTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.32
Consensus pattern (16 bp):
ATTAAATAGCTATGAA
Found at i:43428472 original size:102 final size:102
Alignment explanation
Indices: 43428346--43428548 Score: 406
Period size: 102 Copynumber: 2.0 Consensus size: 102
43428336 CCTACTATCA
43428346 CTTTGGTACTTTTGAAATTATATTTTGATTATATGGCATGTAACGCCCCCATGCCCGAAACCGTC
1 CTTTGGTACTTTTGAAATTATATTTTGATTATATGGCATGTAACGCCCCCATGCCCGAAACCGTC
43428411 ACCGGAGTCAAGCTTGAGGTGTTACTAAACTTATCTG
66 ACCGGAGTCAAGCTTGAGGTGTTACTAAACTTATCTG
43428448 CTTTGGTACTTTTGAAATTATATTTTGATTATATGGCATGTAACGCCCCCATGCCCGAAACCGTC
1 CTTTGGTACTTTTGAAATTATATTTTGATTATATGGCATGTAACGCCCCCATGCCCGAAACCGTC
43428513 ACCGGAGTCAAGCTTGAGGTGTTACTAAACTTATCT
66 ACCGGAGTCAAGCTTGAGGTGTTACTAAACTTATCT
43428549 TACCTTTTAA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (102 bp):
CTTTGGTACTTTTGAAATTATATTTTGATTATATGGCATGTAACGCCCCCATGCCCGAAACCGTC
ACCGGAGTCAAGCTTGAGGTGTTACTAAACTTATCTG
Found at i:43432166 original size:35 final size:35
Alignment explanation
Indices: 43432120--43432187 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
43432110 TATGAGAAAT
43432120 GTATGTTTAAATGTGTGATAAGTTTGGTAATGCCA
1 GTATGTTTAAATGTGTGATAAGTTTGGTAATGCCA
43432155 GTATGTTTAAATGTGTGATAAGTTTGGTAATGC
1 GTATGTTTAAATGTGTGATAAGTTTGGTAATGC
43432188 TCCATAACCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.28, C:0.04, G:0.26, T:0.41
Consensus pattern (35 bp):
GTATGTTTAAATGTGTGATAAGTTTGGTAATGCCA
Found at i:43432470 original size:16 final size:17
Alignment explanation
Indices: 43432441--43432479 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
43432431 TTAAATTATT
43432441 AAAAATATACAAATAAA
1 AAAAATATACAAATAAA
*
43432458 AAAAATTTA-AAATAAA
1 AAAAATATACAAATAAA
*
43432474 GAAAAT
1 AAAAAT
43432480 CGGTTCAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAAATATACAAATAAA
Found at i:43434203 original size:30 final size:30
Alignment explanation
Indices: 43434169--43434228 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
43434159 TATTTTATTA
43434169 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
* * *
43434199 TTAATTTTGTTTTTATTTTAGAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
43434229 CTTATTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.23, C:0.02, G:0.15, T:0.60
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:43434717 original size:32 final size:32
Alignment explanation
Indices: 43434681--43434748 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
43434671 TGGAACCATC
43434681 TGCAAATTGTAATGATTGCATGAAAAAATAGT
1 TGCAAATTGTAATGATTGCATGAAAAAATAGT
* *
43434713 TGCAAATTGTAATGATTGCATGAACAATTAGT
1 TGCAAATTGTAATGATTGCATGAAAAAATAGT
43434745 TGCA
1 TGCA
43434749 TCAATAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (32 bp):
TGCAAATTGTAATGATTGCATGAAAAAATAGT
Found at i:43440988 original size:7 final size:7
Alignment explanation
Indices: 43440976--43441004 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
43440966 TTTATTTTTA
43440976 AAAATTC
1 AAAATTC
43440983 AAAATTC
1 AAAATTC
43440990 AAAATTC
1 AAAATTC
43440997 AAAATTC
1 AAAATTC
43441004 A
1 A
43441005 TGTTTAACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATTC
Found at i:43450227 original size:46 final size:46
Alignment explanation
Indices: 43450177--43450293 Score: 148
Period size: 46 Copynumber: 2.5 Consensus size: 46
43450167 GACGAGTGCT
43450177 AGTGTAAGACATGTCTGGGACATGCATTGGCCT-CGAGACG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGG-CTACGAGACGAT-AGCC
* * * * *
43450223 AGTGTAAGACATGTCTAGGACATGCGTTGGCTATGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCTACGAGACGATAGCC
43450269 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
43450294 GCTTCTACTT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
45 2 0.03
46 45 0.73
47 15 0.24
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCTACGAGACGATAGCC
Found at i:43450307 original size:47 final size:45
Alignment explanation
Indices: 43450222--43450325 Score: 106
Period size: 47 Copynumber: 2.2 Consensus size: 45
43450212 AGACGTAAGC
**
43450222 CAGTGTAAGA-CATGTCTAGGACATGCGTTGGCTATGAGATGATAGT
1 CAGTGTAAGACCATGTCTAGGACATGCGTT-GCTATGAGAT-ATAAA
*
43450268 CAGTGTAAGACCATGTCTGGGACATG-GCTT-CTACTTGAGATATAAA
1 CAGTGTAAGACCATGTCTAGGACATGCG-TTGCTA--TGAGATATAAA
43450314 CTAGTGTAAGAC
1 C-AGTGTAAGAC
43450326 TGTGTTTGGG
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
45 3 0.06
46 15 0.30
47 32 0.64
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (45 bp):
CAGTGTAAGACCATGTCTAGGACATGCGTTGCTATGAGATATAAA
Found at i:43452404 original size:42 final size:40
Alignment explanation
Indices: 43452323--43452398 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
43452313 ATACAGTACC
* **
43452323 ATTTGGTGTATAGGGTTTGATGGGTTGATTCTATCCACAT
1 ATTTGGTGTATAGGGTTGGATGGGTCAATTCTATCCACAT
* * *
43452363 ATTTGGTGTGTAGGGTTGGGTGGGTCAATTTTATCC
1 ATTTGGTGTATAGGGTTGGATGGGTCAATTCTATCC
43452399 CCACATGGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.17, C:0.09, G:0.32, T:0.42
Consensus pattern (40 bp):
ATTTGGTGTATAGGGTTGGATGGGTCAATTCTATCCACAT
Found at i:43461050 original size:21 final size:22
Alignment explanation
Indices: 43461011--43461051 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
43461001 TTGGAATGCT
43461011 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
*
43461033 CACACGGGTGTG-TGCCCCT
1 CACACGGGCGTGTTGCCCCT
43461052 GTGTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.10, C:0.41, G:0.29, T:0.20
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTCC
Done.