Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 202 of 253
Found at i:66317532 original size:34 final size:34
Alignment explanation
Indices: 66317494--66317565 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
66317484 ATGACAGTCC
* *
66317494 AGTATCAGT-TAGGGCCGT-AGCCCATTACAGTATT
1 AGTATCAGTGT-GGGCC-TCAGCCCAATACAGTAAT
66317528 AGTATCAGTGTGGGCCTCAGCCCAATACAGTAAT
1 AGTATCAGTGTGGGCCTCAGCCCAATACAGTAAT
66317562 AGTA
1 AGTA
66317566 ACATTAATGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 1 0.03
34 32 0.94
35 1 0.03
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (34 bp):
AGTATCAGTGTGGGCCTCAGCCCAATACAGTAAT
Found at i:66320299 original size:47 final size:48
Alignment explanation
Indices: 66320187--66320360 Score: 178
Period size: 47 Copynumber: 3.7 Consensus size: 48
66320177 CGTGTAAGCC
* * * **
66320187 AGTGTAAGACCATATCCGGGACATGGCATCGG-CATTGAGATGAGGGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-AGAGATGATAGCT
* *
66320235 AGTGTAAGA-CATTTCTGGGACAT-GCATCGGCCAAGAGATGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAAGAGATGATAGCT
* * ** *
66320281 AGTGTAAGACCATGTCTGGGACATGGCATTGACTTA-AGCT-ATGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAAGAGATGAT-AGCT
*
66320328 AGTGTAAGACTATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
66320361 ACTTAACCCA
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
46 27 0.25
47 63 0.59
48 16 0.15
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAAGAGATGATAGCT
Found at i:66320309 original size:94 final size:94
Alignment explanation
Indices: 66320187--66320360 Score: 237
Period size: 94 Copynumber: 1.8 Consensus size: 94
66320177 CGTGTAAGCC
* * *
66320187 AGTGTAAGACCATATCCGGGACATGGCATCGGCATTGAG-ATGAGGGCTAGTGTAAGAC-ATTTC
1 AGTGTAAGACCATATCCGGGACATGGCATCGAC-TTAAGCATGA--GCTAGTGTAAGACTATGTC
66320250 TGGGACAT-GCATCGGCCAAGAGATGATAGTT
63 TGGGACATGGCATCGGCCAAGAGATGATAGTT
* * *
66320281 AGTGTAAGACCATGTCTGGGACATGGCATTGACTTAAGCTATGAGCTAGTGTAAGACTATGTCTG
1 AGTGTAAGACCATATCCGGGACATGGCATCGACTTAAGC-ATGAGCTAGTGTAAGACTATGTCTG
66320346 GGACATGGCATCGGC
65 GGACATGGCATCGGC
66320361 ACTTAACCCA
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
93 17 0.24
94 41 0.59
95 12 0.17
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACCATATCCGGGACATGGCATCGACTTAAGCATGAGCTAGTGTAAGACTATGTCTGG
GACATGGCATCGGCCAAGAGATGATAGTT
Found at i:66321454 original size:21 final size:22
Alignment explanation
Indices: 66321409--66321462 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
66321399 GGGTGTGGGG
*
66321409 CACGAACGTGTTACCCTTCCCA
1 CACGAGCGTGTTACCCTTCCCA
*
66321431 CACGGGCGTGTTACCCTT-CCA
1 CACGAGCGTGTTACCCTTCCCA
66321452 CACGAGCGTGT
1 CACGAGCGTGT
66321463 GGCCTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.19, C:0.37, G:0.22, T:0.22
Consensus pattern (22 bp):
CACGAGCGTGTTACCCTTCCCA
Found at i:66324735 original size:34 final size:34
Alignment explanation
Indices: 66324697--66324774 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
66324687 AATAACAGTC
* *
66324697 CAGTATCAGT-TAGGGCCAT-AACCCATTACAGTAT
1 CAGTATCAGTGT-GGGCC-TCAACCCAATACAGTAA
*
66324731 CAGTATCAGTGTGGGCCTCAGCCCAATACAGTAA
1 CAGTATCAGTGTGGGCCTCAACCCAATACAGTAA
*
66324765 CAGTAACAGT
1 CAGTATCAGT
66324775 AATTTAATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 1 0.03
34 36 0.95
35 1 0.03
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCTCAACCCAATACAGTAA
Found at i:66332152 original size:22 final size:21
Alignment explanation
Indices: 66332105--66332153 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
66332095 ATGGAGAGAA
*
66332105 TCAAAAGAAAAACTTGAAACC
1 TCAAAAGAAAAACTTCAAACC
*
66332126 CCAAAAGAAAAACCTTTCAAA-C
1 TCAAAAGAAAAA-C-TTCAAACC
66332148 TCAAAA
1 TCAAAA
66332154 CACAAAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 11 0.48
22 7 0.30
23 5 0.22
ACGTcount: A:0.57, C:0.22, G:0.06, T:0.14
Consensus pattern (21 bp):
TCAAAAGAAAAACTTCAAACC
Found at i:66338201 original size:22 final size:21
Alignment explanation
Indices: 66338153--66338201 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
66338143 ATGGAGAGAA
*
66338153 TCAAAAGAAAAACCCGAAACC
1 TCAAAAGAAAAACCCCAAACC
*
66338174 TTAAAAGAAAAACCCTTCAAA-C
1 TCAAAAGAAAAACCC--CAAACC
66338196 TCAAAA
1 TCAAAA
66338202 CGCAAAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 14 0.61
22 6 0.26
23 3 0.13
ACGTcount: A:0.57, C:0.24, G:0.06, T:0.12
Consensus pattern (21 bp):
TCAAAAGAAAAACCCCAAACC
Found at i:66338686 original size:14 final size:15
Alignment explanation
Indices: 66338667--66338695 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
66338657 ATACATGGTC
66338667 ATAAAT-TTTTATAA
1 ATAAATATTTTATAA
66338681 ATAAATATTTTATAA
1 ATAAATATTTTATAA
66338696 TATTTTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATAAATATTTTATAA
Found at i:66338697 original size:10 final size:10
Alignment explanation
Indices: 66338684--66338727 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
66338674 TTTATAAATA
66338684 AATATTTTAT
1 AATATTTTAT
66338694 AATATTTTAT
1 AATATTTTAT
66338704 AATA-TTTA-
1 AATATTTTAT
66338712 AATTATTTTTAT
1 AA-TA-TTTTAT
66338724 AATA
1 AATA
66338728 AGCTTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 2 0.07
9 6 0.20
10 14 0.47
11 6 0.20
12 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
AATATTTTAT
Found at i:66342518 original size:40 final size:40
Alignment explanation
Indices: 66342463--66342760 Score: 424
Period size: 40 Copynumber: 7.5 Consensus size: 40
66342453 CGGATGATAA
* * *
66342463 CCGGGCTAAGTCCCGAAGGCATTTGTTCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * *
66342503 CCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
66342543 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66342583 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
66342623 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
66342663 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
66342703 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
66342743 CC-GGCTAAATCTCGAAGG
1 CCGGGCTAAGTCCCGAAGG
66342761 TACTTGGTTT
Statistics
Matches: 243, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
39 16 0.07
40 226 0.93
41 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:66346179 original size:43 final size:42
Alignment explanation
Indices: 66346052--66346179 Score: 143
Period size: 43 Copynumber: 3.0 Consensus size: 42
66346042 ATATCGTACA
* * *
66346052 ATGCCAACGTCCCAGACGTGGTCTT-ACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTAACAAG-AA-CACATATTG
* * *
66346095 ATGCC-ACTGTCCTAGACAGGGTCTTATACGAGAACACATATTG
1 ATGCCAAC-GTCCCAGACATGGTCTTA-ACAAGAACACATATTG
66346138 ATGCCAACGTCCCAGACATGGTCTTACACAAGAACACATATT
1 ATGCCAACGTCCCAGACATGGTCTTA-ACAAGAACACATATT
66346180 AGAAATCCTA
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
42 2 0.03
43 62 0.87
44 4 0.06
45 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTAACAAGAACACATATTG
Found at i:66350836 original size:10 final size:10
Alignment explanation
Indices: 66350823--66350853 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
66350813 GCTTAAGGTT
66350823 AGTTTAATTA
1 AGTTTAATTA
66350833 AGTTTAATTA
1 AGTTTAATTA
*
66350843 AGATTAATTA
1 AGTTTAATTA
66350853 A
1 A
66350854 AAGTTAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (10 bp):
AGTTTAATTA
Found at i:66355206 original size:29 final size:26
Alignment explanation
Indices: 66355143--66355206 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
66355133 AGTGTGTCTT
66355143 TTTTATAATTACATTAATCATAAAAAA
1 TTTTATAATTACATTAAT-ATAAAAAA
*
66355170 TTATATAACTTACTAATTAAT-TAAAAATA
1 TTTTATAA-TTAC--ATTAATATAAAAA-A
66355199 TTTTATAA
1 TTTTATAA
66355207 ATATTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
27 7 0.23
28 10 0.32
29 8 0.26
30 6 0.19
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (26 bp):
TTTTATAATTACATTAATATAAAAAA
Found at i:66355258 original size:2 final size:2
Alignment explanation
Indices: 66355239--66355291 Score: 58
Period size: 2 Copynumber: 28.0 Consensus size: 2
66355229 CTAAATAAAA
* * *
66355239 AT AT AT TT AT AT -T TT AT AT A- AA AT AT A- 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 AT AT AT
66355278 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
66355292 GAAAAATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:66355278 original size:22 final size:22
Alignment explanation
Indices: 66355236--66355291 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 22
66355226 TAGCTAAATA
* *
66355236 AAAATATATTTATATTTTATAT
1 AAAATATATATATATTATATAT
66355258 AAAATATA-ATATA-TATATAT
1 AAAATATATATATATTATATAT
*
66355278 -ATATATATATATAT
1 AAAATATATATATAT
66355292 GAAAAATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 6 0.21
20 11 0.38
21 4 0.14
22 8 0.28
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAAATATATATATATTATATAT
Found at i:66357627 original size:29 final size:29
Alignment explanation
Indices: 66357594--66357653 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
66357584 GATAGTGGAT
66357594 TTGTTGTCACAAAATATCTCTGTTGCACA
1 TTGTTGTCACAAAATATCTCTGTTGCACA
66357623 TTGTTGTCACAAAATATCTCTGTTGCACA
1 TTGTTGTCACAAAATATCTCTGTTGCACA
66357652 TT
1 TT
66357654 TCTACTCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (29 bp):
TTGTTGTCACAAAATATCTCTGTTGCACA
Found at i:66360614 original size:6 final size:6
Alignment explanation
Indices: 66360603--66360651 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
66360593 TTCCTTCCTT
* * *
66360603 TGCCTC TGCCTC TGCCTC TGCCTC TGCCTC TACCTC TACCTC TACCTC
1 TGCCTC TGCCTC TGCCTC TGCCTC TGCCTC TGCCTC TGCCTC TGCCTC
66360651 T
1 T
66360652 ACCATAACCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.06, C:0.49, G:0.10, T:0.35
Consensus pattern (6 bp):
TGCCTC
Found at i:66366476 original size:21 final size:21
Alignment explanation
Indices: 66366451--66366499 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
66366441 AGTAACTATA
*
66366451 TTAGTTAGTACTCTGTTACAG
1 TTAGTTAATACTCTGTTACAG
* *
66366472 TTAGTTAATATTCTGTTATAG
1 TTAGTTAATACTCTGTTACAG
*
66366493 TGAGTTA
1 TTAGTTA
66366500 CAAATCAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.47
Consensus pattern (21 bp):
TTAGTTAATACTCTGTTACAG
Found at i:66383463 original size:21 final size:20
Alignment explanation
Indices: 66383425--66383476 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
66383415 AGAAAAGAAG
66383425 ATAAAAAAAT--AA-GGAAA
1 ATAAAAAAATAAAAGGGAAA
*
66383442 ATAAAAGAGATAAAAGGGAAA
1 ATAAAA-AAATAAAAGGGAAA
66383463 ATAAAAAAATAAAA
1 ATAAAAAAATAAAA
66383477 AAATATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 6 0.21
18 3 0.10
20 9 0.31
21 11 0.38
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.12
Consensus pattern (20 bp):
ATAAAAAAATAAAAGGGAAA
Found at i:66396213 original size:26 final size:27
Alignment explanation
Indices: 66396167--66396224 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 27
66396157 TAATATGTTT
* *
66396167 TATTCTAAATTATTTCGTATAT-TATC
1 TATTCCAAATTATTTCCTATATATATC
66396193 TATTCCAAATT-TCTTCCTATATAATATC
1 TATTCCAAATTAT-TTCCTATAT-ATATC
66396221 TATT
1 TATT
66396225 TTAATAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 1 0.04
26 18 0.67
28 8 0.30
ACGTcount: A:0.31, C:0.16, G:0.02, T:0.52
Consensus pattern (27 bp):
TATTCCAAATTATTTCCTATATATATC
Found at i:66396995 original size:128 final size:125
Alignment explanation
Indices: 66396720--66397051 Score: 364
Period size: 128 Copynumber: 2.6 Consensus size: 125
66396710 TACAATTTTT
* * * * * *
66396720 TATTTGAAAATTTACTAAAACAAAGGTAATGATT-GATGTTTGGGAACTCGAGGAATCGTGCCCT
1 TATTTCAAAA-TTCCTAAAAC-AAGGCAATG-TTCGATGTTTAGAAATTCGAGGAATCGTGCCCT
* * * * * *
66396784 ACTATGTTGGGTTTCAATTTTCTGTTTGTCCAAATAATCAAATATTCCTTGAAATTTCATCCG
63 ACTGTGCTGGGTTGCAATTTCCCGTTTGTCAAAATAATCAAATATTCCTTGAAATTTCATCCG
* *
66396847 TACTTTGAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTAGAAATTCGGGGAATCGTGCCCT
1 TA-TTTCAAAATTCC-TAAAAC-AAGGCAATGTTCGATGTTTAGAAATTCGAGGAATCGTGCCCT
* * *
66396912 ATTGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCA
63 ACTGTGCTGGGTTGCAATTTCCCGTTTG-TCAAAATAATCAAATATTCCTTGA-AATTTCA-TC-
*
66396977 TG
124 CG
* * *
66396979 T-TTTCTAAATT-CTAAAACAAGGCAATGCTCAATGTTTAGAAATTCGAGGAATCGTGCCCTACT
1 TATTTCAAAATTCCTAAAACAAGGCAATGTTCGATGTTTAGAAATTCGAGGAATCGTGCCCTACT
66397042 GTGCTGGGTT
66 GTGCTGGGTT
66397052 TCGGTTTTTT
Statistics
Matches: 175, Mismatches: 23, Indels: 14
0.83 0.11 0.07
Matches are distributed among these distances:
127 58 0.33
128 76 0.43
129 22 0.13
130 15 0.09
131 2 0.01
132 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (125 bp):
TATTTCAAAATTCCTAAAACAAGGCAATGTTCGATGTTTAGAAATTCGAGGAATCGTGCCCTACT
GTGCTGGGTTGCAATTTCCCGTTTGTCAAAATAATCAAATATTCCTTGAAATTTCATCCG
Found at i:66397039 original size:127 final size:127
Alignment explanation
Indices: 66396767--66397051 Score: 362
Period size: 127 Copynumber: 2.2 Consensus size: 127
66396757 GTTTGGGAAC
* * * * * *
66396767 TCGAGGAATCGTGCCCTACTATGTTGGGTTTCAATTTTCTGTTTGTCCAAATAATCAAATATTCC
1 TCGAGGAATCGTGCCCTACTGTGCTGGGTTGCAATTTCCCGTTTGTCAAAATAATCAAATATTCC
* * *
66396832 TTGAAATTTCATCCGTACTTTGAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTAGAAAT
66 TTGAAATTTCATCCGTA-TTTCAAAATTCCTTAAAACGAAGGCAATGCTCAATGTTTAGAAAT
* * *
66396895 TCGGGGAATCGTGCCCTATTGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTC
1 TCGAGGAATCGTGCCCTACTGTGCTGGGTTGCAATTTCCCGTTTG-TCAAAATAATCAAATATTC
* * *
66396960 CTTTAGAATTTCACTCATGT-TTTCTAAATT-C-TAAAAC-AAGGCAATGCTCAATGTTTAGAAA
65 CTTGA-AATTTCA-TC-CGTATTTCAAAATTCCTTAAAACGAAGGCAATGCTCAATGTTTAGAAA
66397021 T
127 T
66397022 TCGAGGAATCGTGCCCTACTGTGCTGGGTT
1 TCGAGGAATCGTGCCCTACTGTGCTGGGTT
66397052 TCGGTTTTTT
Statistics
Matches: 136, Mismatches: 17, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
127 51 0.38
128 44 0.32
129 22 0.16
130 15 0.11
131 2 0.01
132 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (127 bp):
TCGAGGAATCGTGCCCTACTGTGCTGGGTTGCAATTTCCCGTTTGTCAAAATAATCAAATATTCC
TTGAAATTTCATCCGTATTTCAAAATTCCTTAAAACGAAGGCAATGCTCAATGTTTAGAAAT
Found at i:66414428 original size:60 final size:62
Alignment explanation
Indices: 66414318--66414471 Score: 186
Period size: 60 Copynumber: 2.5 Consensus size: 62
66414308 GCCTTGTAAT
** * * *
66414318 TCACTGTTTATTGTATAAAACCACACAGCCAGGGATACAGGCGTGTGCCTAGGCCGTCTAAC
1 TCACTGTTTATTGTATAAAACCACATGGCCAGGAACACAGGCGTATGCCTAGGCCGTCTAAC
* * *
66414380 TCACAGTTTA-TGTATAAAACCACATGGTCA-GAACACAGGCGTATGCCTAGGCCGTGTAAC
1 TCACTGTTTATTGTATAAAACCACATGGCCAGGAACACAGGCGTATGCCTAGGCCGTCTAAC
* * *
66414440 TTACTGTTCATTGCATAAAATCCACATGGCCA
1 TCACTGTTTATTGTATAAAA-CCACATGGCCA
66414472 AGGCATATGG
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
60 33 0.43
61 25 0.32
62 19 0.25
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (62 bp):
TCACTGTTTATTGTATAAAACCACATGGCCAGGAACACAGGCGTATGCCTAGGCCGTCTAAC
Found at i:66424364 original size:17 final size:18
Alignment explanation
Indices: 66424342--66424375 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
66424332 GAACTTGTCA
*
66424342 AAATTAAGTTA-AAAAGG
1 AAATTAAATTAGAAAAGG
66424359 AAATTAAATTAGAAAAG
1 AAATTAAATTAGAAAAG
66424376 TAATATATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (18 bp):
AAATTAAATTAGAAAAGG
Found at i:66425679 original size:30 final size:30
Alignment explanation
Indices: 66425602--66425679 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
66425592 TTATTAAGAA
* * *
66425602 AAAACATGTTTATATTTATTATATTATGAG
1 AAAATATGTTTATATTAATTACATTATGAG
* * *
66425632 AAAATATTTTTACATTAATTACGTTATGAG
1 AAAATATGTTTATATTAATTACATTATGAG
* *
66425662 AAAGTGTGTTTATATTAA
1 AAAATATGTTTATATTAA
66425680 CAATCTCATG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.45
Consensus pattern (30 bp):
AAAATATGTTTATATTAATTACATTATGAG
Found at i:66428394 original size:19 final size:16
Alignment explanation
Indices: 66428354--66428387 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
66428344 TTTAAAATTA
*
66428354 AAAATAAAAATAGAGT
1 AAAATAAAAAAAGAGT
66428370 AAAATAGAAAAAAGAGT
1 AAAATA-AAAAAAGAGT
66428387 A
1 A
66428388 TGAAATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (16 bp):
AAAATAAAAAAAGAGT
Found at i:66436947 original size:49 final size:48
Alignment explanation
Indices: 66436885--66437104 Score: 193
Period size: 49 Copynumber: 4.6 Consensus size: 48
66436875 CATTAAAGTT
*
66436885 GATGCCATGTCCCAAACAGGTCTTACACTAACTTTCATATATCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTAACTTT-ATATATCGAGGCC
* * * * *
66436934 GATGCCATCTCCCAAACAGGTCTTACAC-AGACTCTCATTTATCG-GTGTC
1 GATGCCATGTCCCAGACAGGTCTTACACTA-ACT-TTATATATCGAG-GCC
* * * * *
66436983 GATGCCATGTCCCAGACAGGTCTTACACTGAC-ATAGA-AT--AAGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTAACTTTATATATCGAGGCC
* *
66437027 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTAACTT-TATATATCGAGGCC
* * * *
66437076 AATG-CATATCCTAGACATGTCTTACACTA
1 GATGCCATGTCCCAGACAGGTCTTACACTA
66437105 GCTCTCGTCT
Statistics
Matches: 136, Mismatches: 25, Indels: 21
0.75 0.14 0.12
Matches are distributed among these distances:
44 31 0.23
46 5 0.04
47 2 0.01
48 24 0.18
49 73 0.54
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACAGGTCTTACACTAACTTTATATATCGAGGCC
Found at i:66439920 original size:16 final size:16
Alignment explanation
Indices: 66439901--66439933 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
66439891 ATGGCCGAGT
66439901 TAGCCTATACATGCCA
1 TAGCCTATACATGCCA
66439917 TAGCCTATACATGCCA
1 TAGCCTATACATGCCA
66439933 T
1 T
66439934 TATACCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.27
Consensus pattern (16 bp):
TAGCCTATACATGCCA
Found at i:66448342 original size:16 final size:16
Alignment explanation
Indices: 66448321--66448355 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
66448311 ACGGTCGATC
* *
66448321 ACACGGTCGTGCGGAA
1 ACACGGCCGTGCGAAA
66448337 ACACGGCCGTGCGAAA
1 ACACGGCCGTGCGAAA
66448353 ACA
1 ACA
66448356 GGGTAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.29, G:0.31, T:0.09
Consensus pattern (16 bp):
ACACGGCCGTGCGAAA
Found at i:66454679 original size:55 final size:55
Alignment explanation
Indices: 66454575--66454680 Score: 128
Period size: 55 Copynumber: 1.9 Consensus size: 55
66454565 CAAAGTTGTA
* *
66454575 CACGGGTAGGCCACACGGGCGTGTGCCATGGCCGTGTTCAAATGACAGTGTCGTC
1 CACGGGCAGGCCACACGGGCGTGTGCCATGGCCGTGTTCAAAAGACAGTGTCGTC
* *
66454630 CACGGGCAGG-CAGCACGGGTGTGTGTCC-TGGCCGTGTT-AATAAGTCAGTGT
1 CACGGGCAGGCCA-CACGGGCGTGTG-CCATGGCCGTGTTCAA-AAGACAGTGT
66454681 TTCCCATGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
54 4 0.09
55 38 0.86
56 2 0.05
ACGTcount: A:0.18, C:0.25, G:0.36, T:0.22
Consensus pattern (55 bp):
CACGGGCAGGCCACACGGGCGTGTGCCATGGCCGTGTTCAAAAGACAGTGTCGTC
Found at i:66457280 original size:28 final size:27
Alignment explanation
Indices: 66457240--66457318 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 27
66457230 TGTGACAGAA
*
66457240 ACCAGATACAGATATTTTGTGGCAGTGCC
1 ACCAGA-ACAGATA-TTTGTGGCAGGGCC
**
66457269 ACCAGAACAGATATACGTGGCAGGGCC
1 ACCAGAACAGATATTTGTGGCAGGGCC
66457296 ACCAGAACAGATAATTTGTGGCA
1 ACCAGAACAGAT-ATTTGTGGCA
66457319 TAGCCACTAG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
27 23 0.52
28 15 0.34
29 6 0.14
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (27 bp):
ACCAGAACAGATATTTGTGGCAGGGCC
Found at i:66457481 original size:28 final size:28
Alignment explanation
Indices: 66457434--66457497 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
66457424 AAATTAACCC
*
66457434 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
66457462 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
66457490 TAGGGGTA
1 TAGGGGTA
66457498 CTCTAGTACA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:66464090 original size:17 final size:17
Alignment explanation
Indices: 66464068--66464100 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
66464058 CAGAAGTCCA
66464068 GATTTTTTTTAAAAATT
1 GATTTTTTTTAAAAATT
*
66464085 GATTTTTTTTGAAAAT
1 GATTTTTTTTAAAAAT
66464101 CTTCGTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (17 bp):
GATTTTTTTTAAAAATT
Found at i:66465194 original size:28 final size:27
Alignment explanation
Indices: 66465108--66465197 Score: 83
Period size: 27 Copynumber: 3.2 Consensus size: 27
66465098 GTGACAGAGT
* *
66465108 CACCAGATATAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* ** *
66465137 CATCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
66465164 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
66465192 CACCAG
1 CACCAG
66465198 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
27 22 0.45
28 21 0.43
29 6 0.12
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:66465350 original size:28 final size:28
Alignment explanation
Indices: 66465303--66465394 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
66465293 AAATTAACCC
*
66465303 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
*
66465331 TAGAGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
66465359 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
66465387 TAGGGGTA
1 TAGGGGTA
66465395 CTCTAGTACA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 1 0.02
28 59 0.98
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:66473891 original size:43 final size:43
Alignment explanation
Indices: 66473803--66473967 Score: 192
Period size: 43 Copynumber: 3.9 Consensus size: 43
66473793 AATGTGATAT
* * * * *
66473803 TCGGGCCTC-GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTG-A-AATAATA
*
66473846 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAATA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
*
66473889 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATGATA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
** * *
66473932 TCGGGCTTCAAGCCTGGCAGGCGA-AATGCCGGTGAA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
66473968 TGAGTTCAAA
Statistics
Matches: 108, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
42 12 0.11
43 74 0.69
44 16 0.15
45 6 0.06
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.23
Consensus pattern (43 bp):
TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
Found at i:66480212 original size:122 final size:122
Alignment explanation
Indices: 66479995--66480237 Score: 468
Period size: 122 Copynumber: 2.0 Consensus size: 122
66479985 TCAATGTGAG
*
66479995 TCTGGTGTTGAGTCAGATTTTCGAATTAGTCCTGATGGATGTTTAATGTTTAGAGATAGAGTTTG
1 TCTGGTGTTGAGTCAGATTTCCGAATTAGTCCTGATGGATGTTTAATGTTTAGAGATAGAGTTTG
66480060 TGTACCTAAAGACAATGAACTTATTCAGAAGATTTTTCAAGAAGCACATAATAGTCA
66 TGTACCTAAAGACAATGAACTTATTCAGAAGATTTTTCAAGAAGCACATAATAGTCA
66480117 TCTGGTGTTGAGTCAGATTTCCGAATTAGTCCTGATGGATGTTTAATGTTTAGAGATAGAGTTTG
1 TCTGGTGTTGAGTCAGATTTCCGAATTAGTCCTGATGGATGTTTAATGTTTAGAGATAGAGTTTG
*
66480182 TGTACCTAAAGACAATGAACTTATTCAGAAGATTTTTCAAGAAGTACATAATAGTC
66 TGTACCTAAAGACAATGAACTTATTCAGAAGATTTTTCAAGAAGCACATAATAGTC
66480238 GTTTGTCTGT
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 119 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (122 bp):
TCTGGTGTTGAGTCAGATTTCCGAATTAGTCCTGATGGATGTTTAATGTTTAGAGATAGAGTTTG
TGTACCTAAAGACAATGAACTTATTCAGAAGATTTTTCAAGAAGCACATAATAGTCA
Found at i:66486261 original size:21 final size:21
Alignment explanation
Indices: 66486221--66486278 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
66486211 TGAATATGCC
66486221 AACAGAAGCTCG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTG
66486240 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
*
66486261 AACAGAAGCTCATAAGAG
1 AACAGAAGCTCGTAAGAG
66486279 ATGATACACC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 12 0.33
20 2 0.06
21 22 0.61
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.12
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:66489533 original size:21 final size:21
Alignment explanation
Indices: 66489466--66489533 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
66489456 TTTACTTTCC
*
66489466 GTTTAGCTCTCA-CGAGCTTCT
1 GTTTAGCTCT-ATTGAGCTTCT
** *
66489487 GTTTAAATC-ATATGAGTTTTCT
1 GTTTAGCTCTAT-TGAG-CTTCT
66489509 -TTTAGCTCTATTGAGCTTCT
1 GTTTAGCTCTATTGAGCTTCT
66489529 GTTTA
1 GTTTA
66489534 ACCCTTATGG
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 24 0.69
22 6 0.17
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (21 bp):
GTTTAGCTCTATTGAGCTTCT
Found at i:66489562 original size:20 final size:20
Alignment explanation
Indices: 66489533--66489587 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
66489523 GCTTCTGTTT
66489533 AACCCTTATGGGTTCCATTC
1 AACCCTTATGGGTTCCATTC
* * * *
66489553 AGCTCTTATGAGCTTCCGTTC
1 AACCCTTATG-GGTTCCATTC
66489574 AACCCTTATGGGTT
1 AACCCTTATGGGTT
66489588 TTTGTTTAGC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.36
Consensus pattern (20 bp):
AACCCTTATGGGTTCCATTC
Found at i:66489616 original size:42 final size:41
Alignment explanation
Indices: 66489520--66489616 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
66489510 TTAGCTCTAT
* *
66489520 TGAGCTTCTGTTTAACCCTTATGGGTTCCATTCAGCTCTTA
1 TGAGCTTCTGTTCAACCCTTATGGGTTCCATTCAGCACTTA
* *** *
66489561 TGAGCTTCCGTTCAACCCTTATGGGTTTTTGTTTAGCACTTA
1 TGAGCTTCTGTTCAACCCTTATGGG-TTCCATTCAGCACTTA
*
66489603 TGTGCTTCTGTTCA
1 TGAGCTTCTGTTCA
66489617 GCGTTCGAGC
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 23 0.50
42 23 0.50
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (41 bp):
TGAGCTTCTGTTCAACCCTTATGGGTTCCATTCAGCACTTA
Found at i:66495502 original size:46 final size:46
Alignment explanation
Indices: 66495452--66495622 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
66495442 GTTGAGCATT
* *
66495452 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
1 CGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTC
* * * *
66495498 CGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAA--A--CGTC
* * *
66495545 CGAACTCGTTGAGTTGAGTCCAAGTTCATTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTC
* *
66495591 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CGAACTCGTTGAGTTGAGTCCAAGTTCACTTA
66495623 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 57 0.55
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTC
Found at i:66495599 original size:93 final size:93
Alignment explanation
Indices: 66495447--66495617 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
66495437 GGATGGTTGA
* * * *
66495447 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
66495512 TGAGTCCAAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* * *
66495540 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
66495605 TGAGTCCGAGTTC
66 TGAGTCCAAGTTC
66495618 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:66510062 original size:13 final size:13
Alignment explanation
Indices: 66510040--66510077 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
66510030 ATATATTATA
*
66510040 TATATTAAAAATT
1 TATATAAAAAATT
66510053 TATATAAAAAA-T
1 TATATAAAAAATT
*
66510065 AATATAAAAAATT
1 TATATAAAAAATT
66510078 AATACGGGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TATATAAAAAATT
Found at i:66510080 original size:13 final size:13
Alignment explanation
Indices: 66510041--66510081 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
66510031 TATATTATAT
* *
66510041 ATATTAAAAATTT
1 ATATAAAAAATTA
66510054 ATATAAAAAA-TA
1 ATATAAAAAATTA
66510066 ATATAAAAAATTA
1 ATATAAAAAATTA
66510079 ATA
1 ATA
66510082 CGGGCGGGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATATAAAAAATTA
Found at i:66510524 original size:13 final size:13
Alignment explanation
Indices: 66510476--66510524 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
66510466 CTTAAACCAA
66510476 ACTTCTCAAAATC
1 ACTTCTCAAAATC
* *
66510489 ACTTTTCCAAATC
1 ACTTCTCAAAATC
* *
66510502 ACTT-TTAAAAAC
1 ACTTCTCAAAATC
66510514 ACTTCTCAAAA
1 ACTTCTCAAAA
66510525 GTAATGTTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
12 9 0.31
13 20 0.69
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.33
Consensus pattern (13 bp):
ACTTCTCAAAATC
Found at i:66517560 original size:22 final size:21
Alignment explanation
Indices: 66517522--66517564 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
66517512 TGAGTTTTAA
*
66517522 ATTTTTTTTATACAATAATAAT
1 ATTTTTTTTATAAAAT-ATAAT
66517544 ATTTTATTTT-TAAAATATAAT
1 ATTTT-TTTTATAAAATATAAT
66517565 TCTATATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTTTTTATAAAATATAAT
Found at i:66519213 original size:37 final size:37
Alignment explanation
Indices: 66519163--66519233 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
66519153 TTTAAATTAC
66519163 AAGTATATGGTTATTTGATATGTGAACGAAAATGAAT
1 AAGTATATGGTTATTTGATATGTGAACGAAAATGAAT
*
66519200 AAGTATATGGTTATTTGATATGTGTACGAAAATG
1 AAGTATATGGTTATTTGATATGTGAACGAAAATG
66519234 TTCAAAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.37
Consensus pattern (37 bp):
AAGTATATGGTTATTTGATATGTGAACGAAAATGAAT
Found at i:66521161 original size:47 final size:47
Alignment explanation
Indices: 66521108--66521237 Score: 161
Period size: 47 Copynumber: 2.8 Consensus size: 47
66521098 CACAATGATA
*
66521108 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGG
* ** * * * ***
66521155 AGTACCTATATCATGGCCTATAGCCAAATCAATGTATCTCCTCTTTG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGG
*
66521202 AATACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
66521238 TTATTCACAC
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGG
Found at i:66522681 original size:51 final size:51
Alignment explanation
Indices: 66522569--66522682 Score: 128
Period size: 51 Copynumber: 2.2 Consensus size: 51
66522559 GTTATTAAAT
** * *
66522569 TTTAATAGGATTATTATTAAAATGATTTAATAATAAATAATATAATCATAT
1 TTTAATATAATTATTATTAAAATAATTTAATAATAAATAATATAATCATAA
66522620 TTTAATATAATTATTATTAAATATAATTTAATAA-AAAT-ATA-AAT-ATAAAA
1 TTTAATATAATTATTATTAAA-ATAATTTAATAATAAATAATATAATCAT--AA
66522670 TTTAATAATAATT
1 TTTAAT-ATAATT
66522683 TAATATAATT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
48 2 0.04
49 3 0.05
50 10 0.18
51 29 0.53
52 11 0.20
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.44
Consensus pattern (51 bp):
TTTAATATAATTATTATTAAAATAATTTAATAATAAATAATATAATCATAA
Found at i:66523138 original size:18 final size:18
Alignment explanation
Indices: 66523114--66523156 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
66523104 TCGATGGCAA
66523114 AGATTCTGCATATATTGC
1 AGATTCTGCATATATTGC
*
66523132 GGATTCTGCATATATTGC
1 AGATTCTGCATATATTGC
66523150 AGATTCT
1 AGATTCT
66523157 TCACAGCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (18 bp):
AGATTCTGCATATATTGC
Found at i:66527778 original size:46 final size:44
Alignment explanation
Indices: 66527624--66527839 Score: 145
Period size: 46 Copynumber: 4.7 Consensus size: 44
66527614 TTTGTGTGCT
* * ** *
66527624 AGTGTAAGACATGTCTGGGACATACATCGACCATATTATGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-GC-TACGA-GATTAGCC
* * * *
66527670 AGTGTAAGACCATGTTTGGGACATGGCATTGGCATTGA-GACGA-GAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--T-ACGA-GATTAGCC
66527718 AGTGTATA-ACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
1 AGTGTA-AGACATGTCTGGGACATGCATCGG-CTACGAGAT-T-AGCC
* * * *
66527764 AGTGTGAGACATGTCTGGGACATGCATCAGCTACGAGATTTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATTAGCC
66527808 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
66527840 TATGGATATG
Statistics
Matches: 138, Mismatches: 18, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
43 2 0.01
44 12 0.09
45 19 0.14
46 56 0.41
47 28 0.20
48 19 0.14
49 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATTAGCC
Found at i:66530706 original size:28 final size:29
Alignment explanation
Indices: 66530665--66530722 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
66530655 TTTTATTTTT
*
66530665 ATTTTAATAATTTTTTATTTAATTTTTAC
1 ATTTTAATAATTTTTTATTTAATTCTTAC
* * *
66530694 ATTTTAA-ATTTTTTTGTTTGATTCTTAC
1 ATTTTAATAATTTTTTATTTAATTCTTAC
66530722 A
1 A
66530723 AGTTTTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (29 bp):
ATTTTAATAATTTTTTATTTAATTCTTAC
Found at i:66534655 original size:62 final size:62
Alignment explanation
Indices: 66534555--66534693 Score: 181
Period size: 62 Copynumber: 2.2 Consensus size: 62
66534545 CCACGTTGTC
* * ** * *
66534555 GCCAAGCCACTAAATGTTGCAGTCAAGCTACATGTTGTGGACAAGCCACTCATAGA-GTTATG
1 GCCAAGCCACTCAATGTTACAGTCAAGCTACACATTGTGAACAAGCCACTCATA-ACATTATG
* *
66534617 GCCAAGCCACTCAATGTTACAGTCAAGCTGCACATTGTGAACAAGCCACTCATAACATTGTG
1 GCCAAGCCACTCAATGTTACAGTCAAGCTACACATTGTGAACAAGCCACTCATAACATTATG
*
66534679 GACAAGCCACTCAAT
1 GCCAAGCCACTCAAT
66534694 TTTTGTAGTA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
61 1 0.01
62 66 0.99
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.22
Consensus pattern (62 bp):
GCCAAGCCACTCAATGTTACAGTCAAGCTACACATTGTGAACAAGCCACTCATAACATTATG
Found at i:66534678 original size:23 final size:23
Alignment explanation
Indices: 66534648--66534691 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
66534638 GTCAAGCTGC
66534648 ACATTGTGAACAAGCCACTCATA
1 ACATTGTGAACAAGCCACTCATA
*
66534671 ACATTGTGGACAAGCCACTCA
1 ACATTGTGAACAAGCCACTCA
66534692 ATTTTTGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.20
Consensus pattern (23 bp):
ACATTGTGAACAAGCCACTCATA
Found at i:66534910 original size:83 final size:83
Alignment explanation
Indices: 66534785--66534937 Score: 216
Period size: 83 Copynumber: 1.8 Consensus size: 83
66534775 TTTCAATAGG
* * *
66534785 CATGCTTAACATGCGAATCAAATCTAAGATCAACATAGTCGACATGCTTAACATGCAAATCAAAT
1 CATGCTTAACATGCAAATCAAATATAAGATCAACATAATCGACATGCTTAACATGCAAATCAAAT
66534850 ATCAGCTTATCATAATGA
66 ATCAGCTTATCATAATGA
* * * * * *
66534868 CATGCTTAATATGCAAATCAAATATCAGTTTATCATAATCGACATGCTTAATATGCAAATCAAAT
1 CATGCTTAACATGCAAATCAAATATAAGATCAACATAATCGACATGCTTAACATGCAAATCAAAT
*
66534933 CTCAG
66 ATCAG
66534938 TTAATAAATC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
83 60 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.29
Consensus pattern (83 bp):
CATGCTTAACATGCAAATCAAATATAAGATCAACATAATCGACATGCTTAACATGCAAATCAAAT
ATCAGCTTATCATAATGA
Found at i:66534938 original size:42 final size:42
Alignment explanation
Indices: 66534785--66534939 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
66534775 TTTCAATAGG
* * * * * * *
66534785 CATGCTTAACATGCGAATCAAATCTAAGATCAACATAGTCGA
1 CATGCTTAACATGCAAATCAAATATCAGTTTATCATAATCGA
*
66534827 CATGCTTAACATGCAAATCAAATATCAGCTTATCATAAT-GA
1 CATGCTTAACATGCAAATCAAATATCAGTTTATCATAATCGA
*
66534868 CATGCTTAATATGCAAATCAAATATCAGTTTATCATAATCGA
1 CATGCTTAACATGCAAATCAAATATCAGTTTATCATAATCGA
* *
66534910 CATGCTTAATATGCAAATCAAATCTCAGTT
1 CATGCTTAACATGCAAATCAAATATCAGTT
66534940 AATAAATCAG
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 39 0.38
42 63 0.62
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (42 bp):
CATGCTTAACATGCAAATCAAATATCAGTTTATCATAATCGA
Found at i:66537997 original size:2 final size:2
Alignment explanation
Indices: 66537990--66538018 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
66537980 CTATTAGGTT
66537990 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
66538019 GAAAAAGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:66540967 original size:71 final size:71
Alignment explanation
Indices: 66540892--66541030 Score: 199
Period size: 71 Copynumber: 2.0 Consensus size: 71
66540882 TTTCTCCGCC
* *
66540892 TACATTGTGGATATGAT-GATTACTAATATTATAAAATCAAATAATTATTTCAAATATCATTAAT
1 TACATTATGGATATGATAAATT-CTAATATTATAAAATCAAATAATTATTTCAAATATCATTAAT
66540956 TTTAATG
65 TTTAATG
* * * * *
66540963 TACATTATGGGTATGGTAAATTCTAATATTATAAAATCGATTAATTATTTCAAATATCATTATTT
1 TACATTATGGATATGATAAATTCTAATATTATAAAATCAAATAATTATTTCAAATATCATTAATT
66541028 TTA
66 TTA
66541031 GTAAATATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
71 57 0.95
72 3 0.05
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (71 bp):
TACATTATGGATATGATAAATTCTAATATTATAAAATCAAATAATTATTTCAAATATCATTAATT
TTAATG
Found at i:66541956 original size:37 final size:36
Alignment explanation
Indices: 66541890--66542009 Score: 102
Period size: 37 Copynumber: 3.2 Consensus size: 36
66541880 ATATCGGTAT
* * *
66541890 TTTATTTTTC-AATCTAGAAACGTAGTTGTGAGGTCC
1 TTTATTTTTCTATTC-AGAAACTTAATTGTGAGGTCC
* *
66541926 TTTAATTTTTC-AGTTCA-AATGCTTAATTGTGAGCTCCC
1 TTT-ATTTTTCTA-TTCAGAA-ACTTAATTGTGAGGT-CC
* *
66541964 TTTATTTTTCTATTCAGAAACTTAGTTGTGAAGTCC
1 TTTATTTTTCTATTCAGAAACTTAATTGTGAGGTCC
66542000 TTTTATTTTT
1 -TTTATTTTT
66542010 TTGTTAAAAG
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
36 7 0.10
37 51 0.75
38 10 0.15
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.48
Consensus pattern (36 bp):
TTTATTTTTCTATTCAGAAACTTAATTGTGAGGTCC
Found at i:66543367 original size:3 final size:3
Alignment explanation
Indices: 66543359--66543413 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
66543349 TTGTAAGCTT
66543359 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
66543407 TTA TTA T
1 TTA TTA T
66543414 CAGAATTCAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:66543698 original size:11 final size:11
Alignment explanation
Indices: 66543682--66543718 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
66543672 ACATCAACTA
66543682 ATATTTTTGAT
1 ATATTTTTGAT
66543693 ATATTTTTGAT
1 ATATTTTTGAT
66543704 ATATTTTTGAT
1 ATATTTTTGAT
66543715 ATAT
1 ATAT
66543719 AATATTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (11 bp):
ATATTTTTGAT
Found at i:66546389 original size:35 final size:35
Alignment explanation
Indices: 66546349--66546560 Score: 246
Period size: 35 Copynumber: 6.1 Consensus size: 35
66546339 CATGGTAAAA
* *
66546349 TTATGACATGTAGGTATAGTATTATCCATACTGAG
1 TTATGACACGTAGGTATGGTATTATCCATACTGAG
66546384 TTATGACACGTAGGTATGGTATTATCCATACTGAG
1 TTATGACACGTAGGTATGGTATTATCCATACTGAG
* * * *
66546419 TTATTACATGTAGGTATGGTATTATCTATAATGAG
1 TTATGACACGTAGGTATGGTATTATCCATACTGAG
*
66546454 TTATGATACGTAGGTATGGTATTATCCATACTGAG
1 TTATGACACGTAGGTATGGTATTATCCATACTGAG
* * * ** *
66546489 CTATAATACAAAGGTATGGTATT-TCCCATACCGAG
1 TTATGACACGTAGGTATGGTATTAT-CCATACTGAG
* * * * *
66546524 TTGTGAAATGTAAGTATGGTATTAACCATACTGAG
1 TTATGACACGTAGGTATGGTATTATCCATACTGAG
66546559 TT
1 TT
66546561 GTGAATCGTG
Statistics
Matches: 149, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
34 1 0.01
35 148 0.99
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (35 bp):
TTATGACACGTAGGTATGGTATTATCCATACTGAG
Found at i:66555322 original size:12 final size:12
Alignment explanation
Indices: 66555305--66555337 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
66555295 CGGCCGGCCC
66555305 ATATTAATTTTT
1 ATATTAATTTTT
66555317 ATATT-ATTTTT
1 ATATTAATTTTT
66555328 ATA-TAATTTT
1 ATATTAATTTT
66555338 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:66555498 original size:30 final size:32
Alignment explanation
Indices: 66555462--66555526 Score: 98
Period size: 30 Copynumber: 2.1 Consensus size: 32
66555452 ACTTAACAAG
*
66555462 CAAATGTCTCTAAAATAAT-A-ACAAAATTAA
1 CAAATGTCTCTAAAATAATAATAAAAAATTAA
*
66555492 CAAATGTCTTTAAAATAATAATAAAAAATTAA
1 CAAATGTCTCTAAAATAATAATAAAAAATTAA
66555524 CAA
1 CAA
66555527 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 18 0.58
31 1 0.03
32 12 0.39
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.28
Consensus pattern (32 bp):
CAAATGTCTCTAAAATAATAATAAAAAATTAA
Found at i:66565464 original size:21 final size:20
Alignment explanation
Indices: 66565440--66565479 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
66565430 TATGTATTGT
*
66565440 AATGATTGATGATAGATTATG
1 AATGATTAATGATAG-TTATG
*
66565461 AATGTTTAATGATAGTTAT
1 AATGATTAATGATAGTTAT
66565480 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (20 bp):
AATGATTAATGATAGTTATG
Found at i:66570883 original size:24 final size:24
Alignment explanation
Indices: 66570837--66570889 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
66570827 AGGGAATTAG
**
66570837 TATTTATTAGCATAGCATATTTGA
1 TATTTATTAGCATAAAATATTTGA
* *
66570861 TATTTATTAGCATAAAATCTTTGT
1 TATTTATTAGCATAAAATATTTGA
66570885 TATTT
1 TATTT
66570890 CTTTCCATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (24 bp):
TATTTATTAGCATAAAATATTTGA
Found at i:66575013 original size:36 final size:36
Alignment explanation
Indices: 66574966--66575038 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
66574956 CATGCACTTG
* *
66574966 CCAAGTTTGGCGAATCCCCTAAGATTGATGAACTCA
1 CCAAGTCTGGCGAATCCCCTAAGATTGACGAACTCA
* *
66575002 CCAAGTCTGGCGAATCCCCTAAGCTTGGCGAACTCA
1 CCAAGTCTGGCGAATCCCCTAAGATTGACGAACTCA
66575038 C
1 C
66575039 GATAAGTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (36 bp):
CCAAGTCTGGCGAATCCCCTAAGATTGACGAACTCA
Found at i:66575032 original size:18 final size:17
Alignment explanation
Indices: 66574972--66575033 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
66574962 CTTGCCAAGT
66574972 TTGGCGAATCCCCTAAG
1 TTGGCGAATCCCCTAAG
** *
66574989 ATTGATGAACTCACC-AAG
1 -TTGGCGAA-TCCCCTAAG
66575007 TCTGGCGAATCCCCTAAG
1 T-TGGCGAATCCCCTAAG
66575025 CTTGGCGAA
1 -TTGGCGAA
66575034 CTCACGATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
17 5 0.15
18 24 0.71
19 5 0.15
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (17 bp):
TTGGCGAATCCCCTAAG
Found at i:66575223 original size:24 final size:24
Alignment explanation
Indices: 66575177--66575229 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
66575167 AGAGAATTAG
**
66575177 TATTTACTAGCATAGTATATTTGA
1 TATTTACTAGCATAAAATATTTGA
* * *
66575201 TATTTATTAGCATAAAATCTTTGT
1 TATTTACTAGCATAAAATATTTGA
66575225 TATTT
1 TATTT
66575230 CTTTTTTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (24 bp):
TATTTACTAGCATAAAATATTTGA
Found at i:66575673 original size:268 final size:268
Alignment explanation
Indices: 66575196--66575737 Score: 949
Period size: 268 Copynumber: 2.0 Consensus size: 268
66575186 GCATAGTATA
* *
66575196 TTTGATATTTATTAGCATAAAATCTTTGTTATTTCTTTTTTTATTTAAGAGTTTTTTGTGTTACA
1 TTTGATATTTATTAACATAAAATCTTTGTTATTTCTTTTTGTATTTAAGAGTTTTTTGTGTTACA
* * *
66575261 AATACCTCTCTTCTTTCTTTGTTCATTAGGTGTGTGAAAAATATATAATATAAAAAGTTTAATAG
66 AATACCTCTCTTCTTTCTTTGTTCATTAGGTATGTGAAAAATATATAATATAAAAAGTTTAACAA
*
66575326 ATAGTTTTGTTGCTAAATTTTTATTTTTTCTATGCAATTCTTCCTTTCTTAGTATAAAAAATCCA
131 ATAGTTTTGTTGCTAAATTTTTATTTCTTCTATGCAATTCTTCCTTTCTTAGTATAAAAAATCCA
* * * *
66575391 ACAATTTTTTATTGGATATGCAATGCAGGATAGAGCAAGACAAGTTTCAATTCATAAAAAGAGGG
196 ACAATTTTTTATTGGATATCCAATGCAAGATAGAACAAGACAAGTTTCAATTCATAAAAAAAGGG
66575456 ACAAATGG
261 ACAAATGG
*
66575464 TTTGATATTTATTAACATAAAATCTTTGTTATTTCTTTTTGTATTTAGGAGTTTTTTGTGTTACA
1 TTTGATATTTATTAACATAAAATCTTTGTTATTTCTTTTTGTATTTAAGAGTTTTTTGTGTTACA
*
66575529 AATACCTCTCTTCTTTCTTTGTTCATTAGGTATGTGAAAAATATATAATATAAAAAGTTTAGCAA
66 AATACCTCTCTTCTTTCTTTGTTCATTAGGTATGTGAAAAATATATAATATAAAAAGTTTAACAA
*
66575594 ATAGTTTTGTTGCTAAATTTTTATTTCTTCTCTGCAATTCTTCCTTTCTTAGTATAAAAAATCCA
131 ATAGTTTTGTTGCTAAATTTTTATTTCTTCTATGCAATTCTTCCTTTCTTAGTATAAAAAATCCA
*
66575659 ACAATTTTTTATTGGATATCCAGTGCAAGATAGAACAAGACAAGTTTCAATTCATAAAAAAAGGG
196 ACAATTTTTTATTGGATATCCAATGCAAGATAGAACAAGACAAGTTTCAATTCATAAAAAAAGGG
*
66575724 ACAAATGT
261 ACAAATGG
66575732 TTTGAT
1 TTTGAT
66575738 TTGTTAATTA
Statistics
Matches: 259, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
268 259 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.44
Consensus pattern (268 bp):
TTTGATATTTATTAACATAAAATCTTTGTTATTTCTTTTTGTATTTAAGAGTTTTTTGTGTTACA
AATACCTCTCTTCTTTCTTTGTTCATTAGGTATGTGAAAAATATATAATATAAAAAGTTTAACAA
ATAGTTTTGTTGCTAAATTTTTATTTCTTCTATGCAATTCTTCCTTTCTTAGTATAAAAAATCCA
ACAATTTTTTATTGGATATCCAATGCAAGATAGAACAAGACAAGTTTCAATTCATAAAAAAAGGG
ACAAATGG
Found at i:66578217 original size:92 final size:92
Alignment explanation
Indices: 66578060--66578243 Score: 350
Period size: 92 Copynumber: 2.0 Consensus size: 92
66578050 TAGGCTTGTA
*
66578060 TCTCATCCCTCAATTTCCAAATTTTCAACATAGCTATGTTAATTATCCATACCACATGGATAAAC
1 TCTCATCCCTCAATTTCCAAATTTTCAACATAGCAATGTTAATTATCCATACCACATGGATAAAC
66578125 TTTATATTTATTTGTGTCTTGAAAATG
66 TTTATATTTATTTGTGTCTTGAAAATG
*
66578152 TCTCATCCCTCAATTTCCAAATTTTCAACGTAGCAATGTTAATTATCCATACCACATGGATAAAC
1 TCTCATCCCTCAATTTCCAAATTTTCAACATAGCAATGTTAATTATCCATACCACATGGATAAAC
66578217 TTTATATTTATTTGTGTCTTGAAAATG
66 TTTATATTTATTTGTGTCTTGAAAATG
66578244 CTATCAAGGA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.40
Consensus pattern (92 bp):
TCTCATCCCTCAATTTCCAAATTTTCAACATAGCAATGTTAATTATCCATACCACATGGATAAAC
TTTATATTTATTTGTGTCTTGAAAATG
Found at i:66580472 original size:17 final size:17
Alignment explanation
Indices: 66580450--66580492 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
66580440 ATTAAGTGAC
66580450 ATAACTTTTGGTAACTT
1 ATAACTTTTGGTAACTT
66580467 ATAACTTTTGGTAACTT
1 ATAACTTTTGGTAACTT
66580484 ATAACTTTT
1 ATAACTTTT
66580493 CATTTGCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (17 bp):
ATAACTTTTGGTAACTT
Found at i:66585858 original size:20 final size:21
Alignment explanation
Indices: 66585833--66585876 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
66585823 TTTTAAAAAT
66585833 ATTTATAACATTA-AAATT-TA
1 ATTTATAAC-TTACAAATTGTA
66585853 ATTTATAACTTACAAATTGTA
1 ATTTATAACTTACAAATTGTA
66585874 ATT
1 ATT
66585877 ATCATATTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 14 0.64
21 5 0.23
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTTATAACTTACAAATTGTA
Found at i:66591954 original size:18 final size:18
Alignment explanation
Indices: 66591927--66591971 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
66591917 GCTTGAACCT
* * *
66591927 GACACGAGTCGTGGCCAC
1 GACACTAGTCATGCCCAC
66591945 GACACTAGTCATGCCCAC
1 GACACTAGTCATGCCCAC
66591963 GACACTAGT
1 GACACTAGT
66591972 AGCGATAAGA
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:0.27, C:0.33, G:0.24, T:0.16
Consensus pattern (18 bp):
GACACTAGTCATGCCCAC
Found at i:66596421 original size:9 final size:9
Alignment explanation
Indices: 66596409--66596441 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
66596399 TTTCCCAATT
66596409 TCTTCTCCA
1 TCTTCTCCA
66596418 TCTTCTCCA
1 TCTTCTCCA
*
66596427 TCTTCTCAA
1 TCTTCTCCA
66596436 TCTTCT
1 TCTTCT
66596442 TCAAAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.39, G:0.00, T:0.48
Consensus pattern (9 bp):
TCTTCTCCA
Found at i:66612225 original size:50 final size:50
Alignment explanation
Indices: 66612150--66612251 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
66612140 GATTTATATG
* * *
66612150 ATAAATACTTGTTCTTATTCTTAATTGTGAGTTTTAATTCTTGCTTTAAT
1 ATAAATACTTGTTCTTATTCTTAATTGTGAGTTCTAATTCTTACCTTAAT
66612200 ATAAATACTTGTTCTTATTCTTAATTGTGAGTTCTAATTCTTACCTTAAT
1 ATAAATACTTGTTCTTATTCTTAATTGTGAGTTCTAATTCTTACCTTAAT
66612250 AT
1 AT
66612252 TCCAGGATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (50 bp):
ATAAATACTTGTTCTTATTCTTAATTGTGAGTTCTAATTCTTACCTTAAT
Found at i:66614741 original size:9 final size:9
Alignment explanation
Indices: 66614727--66614757 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
66614717 GTGTATTGTA
66614727 TTTTATTTT
1 TTTTATTTT
66614736 TTTTA-TTT
1 TTTTATTTT
66614744 TTTTATTTT
1 TTTTATTTT
66614753 TTTTA
1 TTTTA
66614758 AGCACAAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTATTTT
Found at i:66622514 original size:78 final size:78
Alignment explanation
Indices: 66622381--66622532 Score: 252
Period size: 78 Copynumber: 1.9 Consensus size: 78
66622371 GAGTCACATC
*
66622381 TCATGTAACTGTAATGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
1 TCATGTAACTGTAATGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
66622446 AATGAATCATATA
66 AATGAATCATATA
* *
66622459 TCATGTAACTG-AAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATTCGCCTTAAGTTACCA
1 TCATGTAACTGTAA-TGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCA
*
66622523 TAGTGAATCA
65 TAATGAATCA
66622533 GGAATAAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
77 2 0.03
78 67 0.97
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.33
Consensus pattern (78 bp):
TCATGTAACTGTAATGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
AATGAATCATATA
Found at i:66622545 original size:40 final size:39
Alignment explanation
Indices: 66622497--66622585 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 39
66622487 CTTTTCAGGT
* *
66622497 CAAATCCTATTCGCCTTAAGTTACCATAGTGAATCAGGAA
1 CAAATCCTATTCACCTTAAATTA-CATAGTGAATCAGGAA
* *
66622537 TAAATCCTATTCACTTTAAATTACATAGTGAATCAGGAA
1 CAAATCCTATTCACCTTAAATTACATAGTGAATCAGGAA
66622576 CAAATCCTAT
1 CAAATCCTAT
66622586 CCACTTTGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 25 0.57
40 19 0.43
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.30
Consensus pattern (39 bp):
CAAATCCTATTCACCTTAAATTACATAGTGAATCAGGAA
Found at i:66622564 original size:39 final size:40
Alignment explanation
Indices: 66622497--66622633 Score: 159
Period size: 40 Copynumber: 3.5 Consensus size: 40
66622487 CTTTTCAGGT
* * *
66622497 CAAATCCTATTCGCCTTAAGTTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* * *
66622537 TAAATCCTATTCACTTTAAATTA-CATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* * ** *
66622576 CAAATCCTATCCACTTTGAGGTATTATAGTGCATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
*
66622616 CGAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
66622634 TATTCTCGAG
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 34 0.41
40 49 0.59
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
Found at i:66622616 original size:40 final size:39
Alignment explanation
Indices: 66622521--66622633 Score: 145
Period size: 39 Copynumber: 2.9 Consensus size: 39
66622511 CTTAAGTTAC
* * *
66622521 CATAGTGAATCAGGAATAAATCCTATTCACTTTAAATTA
1 CATAGTGAATCAGGAACAAATCCTATCCACTTTAAAGTA
* *
66622560 CATAGTGAATCAGGAACAAATCCTATCCACTTTGAGGTA
1 CATAGTGAATCAGGAACAAATCCTATCCACTTTAAAGTA
* * *
66622599 TTATAGTGCATCAGGAACGAATCCTATCCACTTTA
1 -CATAGTGAATCAGGAACAAATCCTATCCACTTTA
66622634 TATTCTCGAG
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
39 34 0.53
40 30 0.47
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (39 bp):
CATAGTGAATCAGGAACAAATCCTATCCACTTTAAAGTA
Found at i:66633220 original size:43 final size:43
Alignment explanation
Indices: 66633172--66633369 Score: 351
Period size: 43 Copynumber: 4.6 Consensus size: 43
66633162 CCGGCATTAC
66633172 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
66633215 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
66633258 GCCTGCTAGGCACGAAAGCCCGAATACATATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
66633301 GCCTGCTAGGCACGAAGGCTCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
66633344 GCCTGCTAGGCACAAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
66633370 TAATACCAGC
Statistics
Matches: 146, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 146 1.00
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:66633418 original size:38 final size:38
Alignment explanation
Indices: 66633362--66633464 Score: 134
Period size: 38 Copynumber: 2.7 Consensus size: 38
66633352 GGCACAAAGG
* * * *
66633362 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
*
66633400 CCTGGATATAATACCAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
** *
66633438 CCCGGATATTTTACTAGCACGAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCT
66633465 GCTGGTCTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
Found at i:66636397 original size:21 final size:20
Alignment explanation
Indices: 66636373--66636412 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
66636363 CATGTATTTT
66636373 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
66636394 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
66636413 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:66636420 original size:20 final size:21
Alignment explanation
Indices: 66636378--66636420 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
66636368 ATTTTAATGA
*
66636378 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
66636399 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
66636419 TT
1 TT
66636421 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:66644600 original size:98 final size:98
Alignment explanation
Indices: 66644431--66644628 Score: 378
Period size: 98 Copynumber: 2.0 Consensus size: 98
66644421 CCCACATCTC
*
66644431 TCCCATGTCTTATAAAGTATGCCACTTGTTTCATGGTCATTCTTCAGAAATGCTATAAACAAAGG
1 TCCCATGTCTTATAAAGTACGCCACTTGTTTCATGGTCATTCTTCAGAAATGCTATAAACAAAGG
*
66644496 ATCCAAAGTTTCATTGGGAGACTTATAATTCTA
66 ATCCAAAGCTTCATTGGGAGACTTATAATTCTA
66644529 TCCCATGTCTTATAAAGTACGCCACTTGTTTCATGGTCATTCTTCAGAAATGCTATAAACAAAGG
1 TCCCATGTCTTATAAAGTACGCCACTTGTTTCATGGTCATTCTTCAGAAATGCTATAAACAAAGG
66644594 ATCCAAAGCTTCATTGGGAGACTTATAATTCTA
66 ATCCAAAGCTTCATTGGGAGACTTATAATTCTA
66644627 TC
1 TC
66644629 TTTAGACAAA
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (98 bp):
TCCCATGTCTTATAAAGTACGCCACTTGTTTCATGGTCATTCTTCAGAAATGCTATAAACAAAGG
ATCCAAAGCTTCATTGGGAGACTTATAATTCTA
Found at i:66648658 original size:13 final size:14
Alignment explanation
Indices: 66648632--66648663 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
66648622 AATTAAACTT
66648632 AAAT-TAAATAATA
1 AAATATAAATAATA
66648645 AAATATAAAT-ATA
1 AAATATAAATAATA
66648658 AAATAT
1 AAATAT
66648664 GTTTATGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATATAAATAATA
Found at i:66649755 original size:20 final size:20
Alignment explanation
Indices: 66649730--66649780 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
66649720 TTAATTATCC
*
66649730 ATTAAATAAATAACTA-TTTA
1 ATTAAATAAATAA-AACTTTA
*
66649750 ATTAAACAAATAAAACTTTA
1 ATTAAATAAATAAAACTTTA
66649770 ATTAAATAAAT
1 ATTAAATAAAT
66649781 TTTCCATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (20 bp):
ATTAAATAAATAAAACTTTA
Found at i:66653248 original size:5 final size:5
Alignment explanation
Indices: 66653238--66653262 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
66653228 CAATTGTCTC
66653238 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
66653263 ATTAAATTTC
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:66653545 original size:20 final size:20
Alignment explanation
Indices: 66653517--66653583 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
66653507 ATATTTATAT
*
66653517 TTTTTAAAAAATTCTAAAAA
1 TTTTAAAAAAATTCTAAAAA
66653537 TTTTAAAAAAATTCTAAAAA
1 TTTTAAAAAAATTCTAAAAA
* * *
66653557 TATATAAAGAAAGT-TAAAAA
1 T-TTTAAAAAAATTCTAAAAA
66653577 -TTTAAAA
1 TTTTAAAA
66653584 TTTTCTAGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
18 5 0.12
20 26 0.65
21 9 0.22
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (20 bp):
TTTTAAAAAAATTCTAAAAA
Found at i:66653831 original size:26 final size:26
Alignment explanation
Indices: 66653779--66653832 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
66653769 TAATTCAAAC
* *
66653779 AATTTCATTCGATTCGACTTGACTCG
1 AATTTCATTCGACTCGACTTAACTCG
*
66653805 AATTTCATTTC-ACTCGACTTAATTCG
1 AATTTCA-TTCGACTCGACTTAACTCG
66653831 AA
1 AA
66653833 AAAAATTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (26 bp):
AATTTCATTCGACTCGACTTAACTCG
Found at i:66659302 original size:27 final size:27
Alignment explanation
Indices: 66659271--66659325 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
66659261 TATCAATCAT
66659271 AAAATTACAAAGTTACATTGGATAAAA
1 AAAATTACAAAGTTACATTGGATAAAA
66659298 AAAATTACAAAGTTACATTGGATAAAA
1 AAAATTACAAAGTTACATTGGATAAAA
66659325 A
1 A
66659326 TCTAATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.56, C:0.07, G:0.11, T:0.25
Consensus pattern (27 bp):
AAAATTACAAAGTTACATTGGATAAAA
Found at i:66659739 original size:17 final size:17
Alignment explanation
Indices: 66659699--66659742 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
66659689 AATCTATTTT
66659699 TTTAATTATTTTTAAAA
1 TTTAATTATTTTTAAAA
*
66659716 TAATAATT-TTTTTAAATA
1 T-TTAATTATTTTTAAA-A
66659734 TTTAATTAT
1 TTTAATTAT
66659743 CTTATTTCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTAATTATTTTTAAAA
Found at i:66663377 original size:25 final size:25
Alignment explanation
Indices: 66663349--66663427 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
66663339 CGTAATGGCG
66663349 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
66663374 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
66663396 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
66663421 ATGTGAT
1 ATGTGAT
66663428 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:66663400 original size:47 final size:47
Alignment explanation
Indices: 66663341--66663667 Score: 525
Period size: 47 Copynumber: 6.9 Consensus size: 47
66663331 TAGTATGGCG
66663341 TAATGG-CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66663387 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66663434 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
66663482 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
66663531 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
66663578 TAATGGCCGATGTGATGAATGTGAAA-TGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
66663624 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
66663668 TCCCGAAGGG
Statistics
Matches: 266, Mismatches: 10, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
46 45 0.17
47 127 0.48
48 48 0.18
49 46 0.17
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:66663844 original size:37 final size:37
Alignment explanation
Indices: 66663786--66663864 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
66663776 CCGAGCTCTA
* * * * *
66663786 AAGACCCGATGACTACGTGTGGGGATTTTGTCTGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
*
66663823 AAGACCCGATAACTTCATGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
66663860 AAGAC
1 AAGAC
66663865 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:66665358 original size:40 final size:40
Alignment explanation
Indices: 66665077--66665340 Score: 442
Period size: 40 Copynumber: 6.7 Consensus size: 40
66665067 GAGAATTGAG
66665077 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
66665117 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
66665157 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
66665197 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
66665237 AGTGATGTATCCGGGCTAAGTCCCGA-GAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
66665276 AGTGATGTATCC-GGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
66665315 GGTGTTATATCCGGGCTAGGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCCGA
66665341 AGAGTAATCA
Statistics
Matches: 215, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
38 12 0.06
39 47 0.22
40 156 0.73
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:66668807 original size:47 final size:47
Alignment explanation
Indices: 66668748--66669121 Score: 633
Period size: 47 Copynumber: 7.9 Consensus size: 47
66668738 TAGTATGGCG
66668748 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66668795 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66668842 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66668889 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
66668937 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
66668984 TAATGGCCGATGCGATGAATGTGAAAGTGTATATATGTGAGAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
66669031 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
66669078 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
66669122 TCCCGAAGGG
Statistics
Matches: 311, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 12 0.04
47 253 0.81
48 34 0.11
49 12 0.04
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:66669068 original size:189 final size:187
Alignment explanation
Indices: 66668748--66669119 Score: 645
Period size: 189 Copynumber: 2.0 Consensus size: 187
66668738 TAGTATGGCG
*
66668748 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGA
*
66668813 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
66 ATGTGAAAGTGTATATATGTGAGAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * *
66668878 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGCC
131 GTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA-A-ATGTGATAGGCC
66668937 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGA
66669002 ATGTGAAAGTGTATATATGTGAGAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
66 ATGTGAAAGTGTATATATGTGAGAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
66669067 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATA
131 GTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATA
66669120 AGTCCCGAAG
Statistics
Matches: 174, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
187 8 0.05
188 1 0.01
189 165 0.95
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (187 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGA
ATGTGAAAGTGTATATATGTGAGAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAGGCC
Found at i:66669283 original size:37 final size:37
Alignment explanation
Indices: 66669240--66669318 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
66669230 CCGAGCTCTA
* * *
66669240 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
* *
66669277 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
66669314 AAGAC
1 AAGAC
66669319 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:66676442 original size:19 final size:19
Alignment explanation
Indices: 66676418--66676462 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
66676408 TATAGTTTTA
66676418 TTTTATATTCAACTATTTG
1 TTTTATATTCAACTATTTG
*
66676437 TTTTATATTCAAGTATTTG
1 TTTTATATTCAACTATTTG
66676456 TTTTATA
1 TTTTATA
66676463 GAATAATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTTATATTCAACTATTTG
Found at i:66676859 original size:20 final size:19
Alignment explanation
Indices: 66676836--66676889 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
66676826 TTTATAGTTT
66676836 TTTTTATGTTTTTATATAAC
1 TTTTTATGTTTTTATA-AAC
* *
66676856 TTTTTATAATTTTTATAAAT
1 TTTTTAT-GTTTTTATAAAC
*
66676876 TTTTTATGATTTTA
1 TTTTTATGTTTTTA
66676890 ATTTTCATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 5 0.17
20 16 0.55
21 8 0.28
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTTATGTTTTTATAAAC
Found at i:66676887 original size:10 final size:10
Alignment explanation
Indices: 66676824--66676888 Score: 51
Period size: 10 Copynumber: 6.3 Consensus size: 10
66676814 TATTTTAGTC
*
66676824 TTTTTATAGT
1 TTTTTATAAT
* *
66676834 TTTTTTTATGT
1 TTTTTATA-AT
*
66676845 TTTTATATAAC
1 TTTT-TATAAT
66676856 TTTTTATAA-
1 TTTTTATAAT
66676865 TTTTTATAAAT
1 TTTTTAT-AAT
*
66676876 TTTTTATGAT
1 TTTTTATAAT
66676886 TTT
1 TTT
66676889 AATTTTCATC
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
9 7 0.15
10 19 0.41
11 17 0.37
12 3 0.07
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.69
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:66679571 original size:7 final size:7
Alignment explanation
Indices: 66679526--66679585 Score: 58
Period size: 7 Copynumber: 9.0 Consensus size: 7
66679516 AGGCAACCCA
66679526 ATTT-TT
1 ATTTATT
66679532 ATTT-TT
1 ATTTATT
*
66679538 CTTTATT
1 ATTTATT
66679545 -TTTATT
1 ATTTATT
66679551 ATCTTA-T
1 AT-TTATT
66679558 A-TTATT
1 ATTTATT
66679564 ATTTATT
1 ATTTATT
66679571 ATTTATT
1 ATTTATT
66679578 ACTTTATT
1 A-TTTATT
66679586 TTTGGATATT
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
5 3 0.06
6 17 0.36
7 18 0.38
8 9 0.19
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTATT
Found at i:66680970 original size:99 final size:99
Alignment explanation
Indices: 66680795--66680973 Score: 268
Period size: 99 Copynumber: 1.8 Consensus size: 99
66680785 TTATTTTAAT
* * * * *
66680795 AATATGTTGGGCTGAGTAATCGGGGTGGGGTGCTTGACTGTCATCTCTCTTCGCGTCAAAAGGTT
1 AATATGTTAGGCTGAGTAACCGGGGTGGGGTGCTAGACTATCATCTCTCTTCACGTCAAAAGGTT
* *
66680860 CGATATGTTCTTAAGAAAAACATAATAAATTAGG
66 CAATATATTCTTAAGAAAAACATAATAAATTAGG
* *
66680894 AATATGTTAGGCTGAGTAACCGGGGTGGGGTGCTAGGCTATCATCTCTCTTCATGTCAAAAGGTT
1 AATATGTTAGGCTGAGTAACCGGGGTGGGGTGCTAGACTATCATCTCTCTTCACGTCAAAAGGTT
*
66680959 CAATGTATTCTTAAG
66 CAATATATTCTTAAG
66680974 CAATAATAAC
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
99 70 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (99 bp):
AATATGTTAGGCTGAGTAACCGGGGTGGGGTGCTAGACTATCATCTCTCTTCACGTCAAAAGGTT
CAATATATTCTTAAGAAAAACATAATAAATTAGG
Found at i:66681022 original size:15 final size:14
Alignment explanation
Indices: 66680993--66681039 Score: 62
Period size: 15 Copynumber: 3.4 Consensus size: 14
66680983 CAATAATGAT
66680993 AAAAAGAAAAA-AA
1 AAAAAGAAAAAGAA
*
66681006 AAAGAG-AAAAGAA
1 AAAAAGAAAAAGAA
66681019 AAAATAGAAAAAGAA
1 AAAA-AGAAAAAGAA
66681034 AAAAAG
1 AAAAAG
66681040 TGATGTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 10 0.34
14 4 0.14
15 11 0.38
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (14 bp):
AAAAAGAAAAAGAA
Found at i:66681671 original size:10 final size:10
Alignment explanation
Indices: 66681656--66681704 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
66681646 AATTTTAGCT
66681656 TTTATCTTTA
1 TTTATCTTTA
66681666 TTTATCTTTA
1 TTTATCTTTA
*
66681676 ATTATCTTTA
1 TTTATCTTTA
*
66681686 TTTAAT-TGTA
1 TTT-ATCTTTA
66681696 TTTATCTTT
1 TTTATCTTT
66681705 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:66684666 original size:37 final size:37
Alignment explanation
Indices: 66684615--66684707 Score: 100
Period size: 37 Copynumber: 2.4 Consensus size: 37
66684605 ATTCCAAAAA
*
66684615 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATTAAATTTAATAT
* *
66684651 TAATACTTATCTTAATAGTATTTTATTAATTTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAAATTTAATAT
66684689 TAAAGTGATTATCTTAATA
1 T-AA-T-ATTATCTTAATA
66684708 TTAAATTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
36 5 0.10
37 24 0.50
38 4 0.08
39 2 0.04
40 12 0.25
41 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (37 bp):
TAATATTATCTTAATAGTATTATATTAAATTTAATAT
Found at i:66684804 original size:20 final size:21
Alignment explanation
Indices: 66684765--66684805 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
66684755 AATAAGATTT
66684765 AATATTAAATTTAATCTAATA
1 AATATTAAATTTAATCTAATA
* *
66684786 AATATTATA-TTAATTTAATA
1 AATATTAAATTTAATCTAATA
66684806 TTAAAGTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AATATTAAATTTAATCTAATA
Found at i:66687328 original size:37 final size:36
Alignment explanation
Indices: 66687277--66687384 Score: 107
Period size: 37 Copynumber: 2.9 Consensus size: 36
66687267 ATTTCAAAAA
*
66687277 TAATATTATTTTAATAGTTTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTTTAATATT-AATTTAATAT
*
66687313 TAATACTTATCTTAATAGTATT-TTATTAATTTAATAT
1 TAATA-TTATCTTAATAGT-TTAATATTAATTTAATAT
*
66687350 TAAAGTGATTATCTTAATA-TTAAAT-TTAATTTAAT
1 T-AA-T-ATTATCTTAATAGTTTAATATTAATTTAAT
66687385 GTTTATCTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
36 13 0.21
37 29 0.48
38 6 0.10
39 12 0.20
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTAATATTAATTTAATAT
Found at i:66687953 original size:13 final size:12
Alignment explanation
Indices: 66687935--66687969 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
66687925 ATAATTTTTC
66687935 TTTCTTTTCCCT
1 TTTCTTTTCCCT
*
66687947 ATTTCTTCTCCCT
1 -TTTCTTTTCCCT
66687960 TTTCTTTTCC
1 TTTCTTTTCC
66687970 ATCCTCTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTCTTTTCCCT
Found at i:66688746 original size:34 final size:34
Alignment explanation
Indices: 66688662--66688823 Score: 195
Period size: 34 Copynumber: 4.9 Consensus size: 34
66688652 AACATGTCTT
* * * *
66688662 TTGCTACTGAATTGATTTGTTATGAACATATT-A
1 TTGCTACCGTATTGATCTGTTATAAACATATTAA
* *
66688695 TT--TACTGTATTGATCTGTTATAAGCATATTAA
1 TTGCTACCGTATTGATCTGTTATAAACATATTAA
*
66688727 TTGCTACCGTAGTGATCTGTTATAAACATATTAA
1 TTGCTACCGTATTGATCTGTTATAAACATATTAA
* * *
66688761 TTGCTACCGAATTGATCTGCTATAAACATACTAA
1 TTGCTACCGTATTGATCTGTTATAAACATATTAA
* *
66688795 TTACTATCGTATTGATCTGTTATAAACAT
1 TTGCTACCGTATTGATCTGTTATAAACAT
66688824 GTCATATTAC
Statistics
Matches: 111, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
31 24 0.22
32 3 0.03
33 2 0.02
34 82 0.74
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (34 bp):
TTGCTACCGTATTGATCTGTTATAAACATATTAA
Found at i:66697179 original size:38 final size:38
Alignment explanation
Indices: 66697127--66697209 Score: 139
Period size: 38 Copynumber: 2.2 Consensus size: 38
66697117 ACTTTAGTGG
*
66697127 AATGACTTCATGACTAAATAATGTGTAATTAATAAGCGA
1 AATGA-TTCATGACTAAATAACGTGTAATTAATAAGCGA
*
66697166 AATGATTCATGACTAAATAACGTGTCATTAATAAGCGA
1 AATGATTCATGACTAAATAACGTGTAATTAATAAGCGA
66697204 AATGAT
1 AATGAT
66697210 GGAACTTAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
38 37 0.88
39 5 0.12
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (38 bp):
AATGATTCATGACTAAATAACGTGTAATTAATAAGCGA
Found at i:66704640 original size:102 final size:102
Alignment explanation
Indices: 66704475--66704660 Score: 282
Period size: 102 Copynumber: 1.8 Consensus size: 102
66704465 TGTGCACATA
* * *
66704475 GGGCTTCTACACACGGCCGTGTGTCTTATTAATTTTAGGTGCAAAATTTTTCAAACGGCATCAAC
1 GGGCTTCCAAACACAGCCGTGTGTCTTATTAATTTTAGGTGCAAAATTTTTCAAACGGCATCAAC
*
66704540 CTGTTACATGACCTGGCAACACGGTCGTGTGCATAAG
66 CTATTACATGACCTGGCAACACGGTCGTGTGCATAAG
* * * *
66704577 GGGCTTCCAAACACAGCCGTGTTTCTTATTGATTTTAGGTGCAAGATTTTTCACACGGCATCAAC
1 GGGCTTCCAAACACAGCCGTGTGTCTTATTAATTTTAGGTGCAAAATTTTTCAAACGGCATCAAC
* *
66704642 CTATTACATGGCTTGGCAA
66 CTATTACATGACCTGGCAA
66704661 TACAGACGTG
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
102 74 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (102 bp):
GGGCTTCCAAACACAGCCGTGTGTCTTATTAATTTTAGGTGCAAAATTTTTCAAACGGCATCAAC
CTATTACATGACCTGGCAACACGGTCGTGTGCATAAG
Found at i:66704903 original size:11 final size:9
Alignment explanation
Indices: 66704871--66704905 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
66704861 TGTGACTCCT
66704871 ATTTTTAAA
1 ATTTTTAAA
66704880 ATTTTTAAA
1 ATTTTTAAA
66704889 ATTTTCTATAA
1 ATTTT-TA-AA
66704900 ATTTTT
1 ATTTTT
66704906 GTTTTGTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 14 0.58
10 3 0.12
11 7 0.29
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:66709533 original size:43 final size:42
Alignment explanation
Indices: 66709463--66709628 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 42
66709453 GAAGATCTCG
* * *
66709463 TACAATGCCAACGTCCCA-A-ATGTGGTCTTACATGTAATCAAA
1 TACAATGCCAATGTCCCAGACA-G-GGTCTTACACGAAATCAAA
* * * *
66709505 TATCGATGCCACTGTCCCAGATAGGGTCTTACACGAAATCATA
1 TA-CAATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAA
* *
66709548 TACAATGCCAATGTCCCAGACATGGTCTTACACTTAAATCATAA
1 TACAATGCCAATGTCCCAGACAGGGTCTTACAC-GAAATCA-AA
* *
66709592 GT-CGATGCCAACGTCCCAGAC-GTGGTCTTACACGAAA
1 -TACAATGCCAATGTCCCAGACAG-GGTCTTACACGAAA
66709629 ACACATATCG
Statistics
Matches: 101, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
42 29 0.29
43 40 0.40
44 30 0.30
45 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.25
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAA
Found at i:66709619 original size:86 final size:85
Alignment explanation
Indices: 66709463--66709628 Score: 205
Period size: 86 Copynumber: 1.9 Consensus size: 85
66709453 GAAGATCTCG
**
66709463 TACAATGCCAACGTCCCAAATGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGATA
1 TACAATGCCAACGTCCCAAACATGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGATA
66709528 GGGTCTTACACGAAATCATA
66 GGGTCTTACACGAAATCATA
* * *
66709548 TACAATGCCAATGTCCCAGACATGGTCTTACACT-TAAATCATAA-GTCGATGCCAAC-GTCCCA
1 TACAATGCCAACGTCCCAAACATGGTCTTACA-TGT-AATCA-AATATCGATGCC-ACTGTCCCA
*
66709610 GA-CGTGGTCTTACACGAAA
62 GATAG-GGTCTTACACGAAA
66709629 ACACATATCG
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
85 30 0.43
86 36 0.51
87 4 0.06
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.25
Consensus pattern (85 bp):
TACAATGCCAACGTCCCAAACATGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGATA
GGGTCTTACACGAAATCATA
Found at i:66712702 original size:13 final size:11
Alignment explanation
Indices: 66712666--66712696 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
66712656 CCACTTGTAT
66712666 TAATTTTTATA
1 TAATTTTTATA
*
66712677 TTATTTTTATA
1 TAATTTTTATA
66712688 TAATTTTTA
1 TAATTTTTA
66712697 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:66712852 original size:30 final size:30
Alignment explanation
Indices: 66712818--66712879 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
66712808 ACTTAACAAG
66712818 CAAATGCCTCTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAATAAAATTAA
* *
66712848 CAAATGCCTTTAAATTAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAATAAAATTAA
66712878 CA
1 CA
66712880 CTAGAATAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAATAAAATTAA
Done.