Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 11 of 349
Found at i:3209495 original size:16 final size:15
Alignment explanation
Indices: 3209471--3209505 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
3209461 TAATTATTAT
3209471 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
3209487 TATTTTAATATTTTA
1 TATTCTAATATTTTA
3209502 TATT
1 TATT
3209506 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:3210809 original size:25 final size:26
Alignment explanation
Indices: 3210781--3210830 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
3210771 AATCTATTCA
* *
3210781 ATTTTCTAATTATTAA-TTTAATTAT
1 ATTTTATAAGTATTAATTTTAATTAT
3210806 ATTTTATAAGTATTAATTTTAATTA
1 ATTTTATAAGTATTAATTTTAATTA
3210831 CAGTTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (26 bp):
ATTTTATAAGTATTAATTTTAATTAT
Found at i:3216569 original size:22 final size:22
Alignment explanation
Indices: 3216544--3216586 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
3216534 ATTCAGCCTC
3216544 AATGGAGAAAGAAAAGAAGAAA
1 AATGGAGAAAGAAAAGAAGAAA
3216566 AATGGAGAAAGAAAAGAAGAA
1 AATGGAGAAAGAAAAGAAGAA
3216587 CAGAAGGGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.05
Consensus pattern (22 bp):
AATGGAGAAAGAAAAGAAGAAA
Found at i:3226680 original size:43 final size:43
Alignment explanation
Indices: 3226545--3226829 Score: 324
Period size: 43 Copynumber: 6.6 Consensus size: 43
3226535 AAAAATTTGT
* *
3226545 GGCGTTTGTGGGAGAAGCGCCGCTAAAAGACGA-GAT-TTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAAGTC-ACG-TCTTTTAGC
* * * * * *
3226588 GGCATTTTTAGGAAAAGTGCTGCTAAAAGTCAC-TGCTGTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGT-CTTTTAGC
*
3226631 GGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGTCTTTTAAC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGTCTTTTAGC
* * * *
3226674 GACGTTTGTGGTATAAGCGTCGCTAAAAGTCACGTCTTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGTCTTTTAGC
* * * * *
3226717 GGCATTTTTGGTAAAAGCACCGCTAAAAATCACGTCTTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGTCTTTTAGC
**
3226760 GGCGTTTGTGAAAAAAGCGCCGCTAAAAGTCACGTCTTTTGAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGTCTTTT-AGC
*
3226804 GGCGTTTGTGGGAAAAGCACCGCTAA
1 GGCGTTTGTGGGAAAAGCGCCGCTAA
3226830 TTTTGGCAGA
Statistics
Matches: 201, Mismatches: 36, Indels: 9
0.82 0.15 0.04
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
43 172 0.86
44 27 0.13
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (43 bp):
GGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGTCTTTTAGC
Found at i:3226698 original size:129 final size:130
Alignment explanation
Indices: 3226547--3226829 Score: 360
Period size: 129 Copynumber: 2.2 Consensus size: 130
3226537 AAATTTGTGG
** *
3226547 CGTTTGTGGGAGAAGCGCCGCTAAAAGACGA-GAT-TTTTAGCGGCATTTTTAGG-AAAAGTGCT
1 CGTTTGTGGGAGAAGCGCCGCTAAAAGAC-ACG-TCTTTTAGCGGCATTTTT-GGTAAAAGCACC
* **
3226609 GCTAAAAGTCAC-TGCTGTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGTCTTTT-A
63 GCTAAAAATCACGT-CTGTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAAGTCACGTCTTTTGA
3226672 ACGA
127 ACGA
* * * *
3226676 CGTTTGTGGTATAAGCGTCGCTAAAAGTCACGTCTTTTAGCGGCATTTTTGGTAAAAGCACCGCT
1 CGTTTGTGGGAGAAGCGCCGCTAAAAGACACGTCTTTTAGCGGCATTTTTGGTAAAAGCACCGCT
* * *
3226741 AAAAATCACGTCTTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAAGTCACGTCTTTTGAGCGG
66 AAAAATCACGTCTGTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAAGTCACGTCTTTTGAACGA
* *
3226806 CGTTTGTGGGAAAAGCACCGCTAA
1 CGTTTGTGGGAGAAGCGCCGCTAA
3226830 TTTTGGCAGA
Statistics
Matches: 132, Mismatches: 17, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
128 4 0.03
129 104 0.79
130 24 0.18
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (130 bp):
CGTTTGTGGGAGAAGCGCCGCTAAAAGACACGTCTTTTAGCGGCATTTTTGGTAAAAGCACCGCT
AAAAATCACGTCTGTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAAGTCACGTCTTTTGAACGA
Found at i:3232602 original size:9 final size:9
Alignment explanation
Indices: 3232588--3232706 Score: 94
Period size: 9 Copynumber: 12.6 Consensus size: 9
3232578 ATGTATTAGT
3232588 TAAGTTATG
1 TAAGTTATG
3232597 TAAGTTGTTATG
1 TAA---GTTATG
*
3232609 TACGTTATG
1 TAAGTTATG
*
3232618 TGAGTTATG
1 TAAGTTATG
*
3232627 TAAATTATG
1 TAAGTTATG
*
3232636 TAAATTATG
1 TAAGTTATG
*
3232645 TGAGTTATG
1 TAAGTTATG
3232654 TAAGTTGTTATG
1 TAA---GTTATG
*
3232666 TAAATTATG
1 TAAGTTATG
*
3232675 TAAGTTATA
1 TAAGTTATG
*
3232684 TGAGTTATG
1 TAAGTTATG
* *
3232693 TAATTTATT
1 TAAGTTATG
3232702 TAAGT
1 TAAGT
3232707 AATGATCAAT
Statistics
Matches: 87, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
9 70 0.80
12 17 0.20
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:3232635 original size:39 final size:41
Alignment explanation
Indices: 3232592--3232694 Score: 107
Period size: 39 Copynumber: 2.7 Consensus size: 41
3232582 ATTAGTTAAG
*
3232592 TTATGTAAGTTGTTATGT-ACGTTATGT-G-AGTTATGTAAA
1 TTATGTAAGTTATTATGTGA-GTTATGTAGTAGTTATGTAAA
*
3232631 TTATGTAA---ATTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTTATTATGTGAGTTATGT-AGTAGTTATGTAAA
3232670 TTATGTAAGTTA-TA--TGAGTTATGTA
1 TTATGTAAGTTATTATGTGAGTTATGTA
3232695 ATTTATTTAA
Statistics
Matches: 55, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
36 13 0.24
37 1 0.02
38 2 0.04
39 36 0.65
41 2 0.04
42 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (41 bp):
TTATGTAAGTTATTATGTGAGTTATGTAGTAGTTATGTAAA
Found at i:3232643 original size:27 final size:27
Alignment explanation
Indices: 3232603--3232700 Score: 106
Period size: 27 Copynumber: 3.5 Consensus size: 27
3232593 TATGTAAGTT
**
3232603 GTTATGTACGTTATGTGAGTTATGTAA
1 GTTATGTAAATTATGTGAGTTATGTAA
*
3232630 ATTATGTAAATTATGTGAGTTATGTAA
1 GTTATGTAAATTATGTGAGTTATGTAA
* * *
3232657 GTTGTTATGTAAATTATGTAAGTTATATGA
1 ---GTTATGTAAATTATGTGAGTTATGTAA
*
3232687 GTTATGTAATTTAT
1 GTTATGTAAATTAT
3232701 TTAAGTAATG
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
27 37 0.62
30 23 0.38
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (27 bp):
GTTATGTAAATTATGTGAGTTATGTAA
Found at i:3232681 original size:57 final size:57
Alignment explanation
Indices: 3232590--3232700 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 57
3232580 GTATTAGTTA
** * *
3232590 AGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAATTATGTG
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAATTATGTG
* * *
3232647 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAATTTAT
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAATTAT
3232701 TTAAGTAATG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.47
Consensus pattern (57 bp):
AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAATTATGTG
Found at i:3232695 original size:39 final size:39
Alignment explanation
Indices: 3232621--3232695 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
3232611 CGTTATGTGA
*
3232621 GTTATGTAAATTATGTAAATTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAATTATATGAGTTATGTAAGTT
*
3232660 GTTATGTAAATTATGTAAGTTATATGAGTTATGTAA
1 GTTATGTAAATTATGTAAATTATATGAGTTATGTAA
3232696 TTTATTTAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (39 bp):
GTTATGTAAATTATGTAAATTATATGAGTTATGTAAGTT
Found at i:3233173 original size:205 final size:205
Alignment explanation
Indices: 3232821--3233429 Score: 1155
Period size: 205 Copynumber: 3.0 Consensus size: 205
3232811 TAATTTGAAT
* *
3232821 ATAGTAATTTTTTAAGATTCATCATACGTGGCGTTGTTCCACCTAGGGAGGATTCATTATATCTT
1 ATAGTAATTTTTTAAGATTCATCGTACGTGGCGTTGTTCCACCTAGGGAGGATCCATTATATCTT
*
3232886 ACAGTTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTA
66 ACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTA
3232951 AAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAA
131 AAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAA
3233016 TAAATATTCA
196 TAAATATTCA
3233026 ATAGTAATTTTTTAAGATTCATCGTACGTGGCGTTGTTCCACCTAGGGAGGATCCATTATATCTT
1 ATAGTAATTTTTTAAGATTCATCGTACGTGGCGTTGTTCCACCTAGGGAGGATCCATTATATCTT
3233091 ACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTA
66 ACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTA
*
3233156 AAATAAGGTTGGAGAGAAGGTCAACTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAA
131 AAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAA
3233221 TAAATATTCA
196 TAAATATTCA
*
3233231 ATAGTAATTTTTTAAGATTCATCGTACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTT
1 ATAGTAATTTTTTAAGATTCATCGTACGTGGCGTTGTTCCACCTAGGGAGGATCCATTATATCTT
*
3233296 ACAGCTCGATATAAGGCAACTCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTA
66 ACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTA
*
3233361 AAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGGAAGCTACATGGTAA
131 AAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAA
3233426 TAAA
196 TAAA
3233430 ATTAATTCAT
Statistics
Matches: 396, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
205 396 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (205 bp):
ATAGTAATTTTTTAAGATTCATCGTACGTGGCGTTGTTCCACCTAGGGAGGATCCATTATATCTT
ACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTA
AAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAA
TAAATATTCA
Found at i:3233588 original size:23 final size:23
Alignment explanation
Indices: 3233562--3233611 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
3233552 GTTCAAGTTT
3233562 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
3233585 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
3233608 ATTT
1 ATTT
3233612 GATTAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:3239355 original size:15 final size:15
Alignment explanation
Indices: 3239335--3239367 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
3239325 ATTATTTAAT
3239335 ATATAAA-TAAAAACA
1 ATATAAATTAAAAA-A
3239350 ATATAAATTAAAAAA
1 ATATAAATTAAAAAA
3239365 ATA
1 ATA
3239368 AGTTATATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
ATATAAATTAAAAAA
Found at i:3239539 original size:17 final size:17
Alignment explanation
Indices: 3239496--3239539 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
3239486 GAAATCTAGA
* *
3239496 AAATTATTGAAATTTTG
1 AAATTATTTAAAATTTG
*
3239513 AAATCA-TTAAAATTTG
1 AAATTATTTAAAATTTG
3239529 AAATTATTTAA
1 AAATTATTTAA
3239540 GATATATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (17 bp):
AAATTATTTAAAATTTG
Found at i:3239860 original size:72 final size:72
Alignment explanation
Indices: 3239702--3239877 Score: 194
Period size: 72 Copynumber: 2.4 Consensus size: 72
3239692 TTAAACCCTA
* * * *
3239702 AACCATTAACCCTTAATCCCTAAATTTTAAATACTAAACCCTAAACAATGTCCCCTTAACCCCTA
1 AACC-TTAACCCCTAATCCCTAAACTTTAAAAACTAAACCCTAAACAATATCCCCTTAACCCCTA
*
3239767 AAACTCTC
65 AAACTATC
* * * * * *
3239775 AACCTTAAACCCTAATCCCTAAACTTTAAAAATTAAACCTTAAACCATATCCCCTTGACCCCT-T
1 AACCTTAACCCCTAATCCCTAAACTTTAAAAACTAAACCCTAAACAATATCCCCTTAACCCCTAA
3239839 AACTATC
66 AACTATC
*
3239846 AACCTTTAACCCCTAGA-CCCTCAACCTTTAAA
1 AACC-TTAACCCCTA-ATCCCT-AAACTTTAAA
3239878 TCTTAACCCC
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
71 10 0.11
72 63 0.72
73 14 0.16
ACGTcount: A:0.38, C:0.34, G:0.02, T:0.27
Consensus pattern (72 bp):
AACCTTAACCCCTAATCCCTAAACTTTAAAAACTAAACCCTAAACAATATCCCCTTAACCCCTAA
AACTATC
Found at i:3240121 original size:16 final size:14
Alignment explanation
Indices: 3240091--3240127 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 14
3240081 CATAATCAAC
3240091 AAACCATAAACCCT
1 AAACCATAAACCCT
3240105 AAACCATATATACCCT
1 AAACCATA-A-ACCCT
3240121 AAACCAT
1 AAACCAT
3240128 GCATAAACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 12 0.57
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:3241003 original size:41 final size:43
Alignment explanation
Indices: 3240918--3241018 Score: 111
Period size: 41 Copynumber: 2.4 Consensus size: 43
3240908 TTAAATTTAG
* * * *
3240918 ATCTA-TAGCGGCGTTTTTCCAATAAGCGTCGCTAAAACTTAA
1 ATCTATTAGCGGCATTTTTCCAATAAGCGCCACTAAAACTCAA
* *
3240960 ATCTATTA-CGGCATTTTTCTAA-AAGCGCCACTAAATCTCAA
1 ATCTATTAGCGGCATTTTTCCAATAAGCGCCACTAAAACTCAA
*
3241001 ATCTA-TAGCGGCGTTTTT
1 ATCTATTAGCGGCATTTTT
3241019 GAGGAAGCGC
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
40 2 0.04
41 29 0.58
42 17 0.34
43 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.34
Consensus pattern (43 bp):
ATCTATTAGCGGCATTTTTCCAATAAGCGCCACTAAAACTCAA
Found at i:3241252 original size:40 final size:41
Alignment explanation
Indices: 3241196--3241272 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 41
3241186 CGTTCTGCTT
*
3241196 AATCTTGTAGCAGCG-TTTTTGTAAAAACGCCGCTAATTCTC
1 AATCTTGTAGCAGCGTTTTTTGT-AAAACGCCACTAATTCTC
*
3241237 AATCTT-TAGCGGCGTTTTTTGTAAAACGCCACTAAT
1 AATCTTGTAGCAGCGTTTTTTGTAAAACGCCACTAAT
3241273 ACTCGATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
40 20 0.61
41 13 0.39
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (41 bp):
AATCTTGTAGCAGCGTTTTTTGTAAAACGCCACTAATTCTC
Found at i:3242122 original size:7 final size:7
Alignment explanation
Indices: 3242110--3242157 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
3242100 TTGTTACTAT
3242110 AATTTTA
1 AATTTTA
3242117 AATTTTA
1 AATTTTA
*
3242124 ATATTTAA
1 A-ATTTTA
3242132 AATTTTA
1 AATTTTA
*
3242139 TATTTTA
1 AATTTTA
* *
3242146 AAATCTA
1 AATTTTA
3242153 AATTT
1 AATTT
3242158 AGAATTTTGG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (7 bp):
AATTTTA
Found at i:3242134 original size:15 final size:14
Alignment explanation
Indices: 3242111--3242149 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
3242101 TGTTACTATA
*
3242111 ATTTTAAATTTTAAT
1 ATTTAAAATTTT-AT
3242126 ATTTAAAATTTTAT
1 ATTTAAAATTTTAT
3242140 ATTTTAAAAT
1 A-TTTAAAAT
3242150 CTAAATTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTAAAATTTTAT
Found at i:3242154 original size:22 final size:22
Alignment explanation
Indices: 3242110--3242154 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
3242100 TTGTTACTAT
* *
3242110 AATTTTAAATTTTAATATTTAA
1 AATTTTAAATTTTAAAATCTAA
*
3242132 AATTTTATATTTTAAAATCTAA
1 AATTTTAAATTTTAAAATCTAA
3242154 A
1 A
3242155 TTTAGAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
AATTTTAAATTTTAAAATCTAA
Found at i:3249857 original size:20 final size:20
Alignment explanation
Indices: 3249832--3249881 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
3249822 TGGCTTAAAA
3249832 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
3249852 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
3249869 GTGGTAGTGGATT
1 TTGGTAGTGGATT
3249882 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:3254486 original size:20 final size:20
Alignment explanation
Indices: 3254461--3254510 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
3254451 TGGCTTAAAA
3254461 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
3254481 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
3254498 GTGGTAGTGGATT
1 TTGGTAGTGGATT
3254511 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:3270009 original size:42 final size:43
Alignment explanation
Indices: 3269930--3270012 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 43
3269920 TATTTAATCA
* * **
3269930 TTTTAGAAATAATAAAATTATAAGTTAATTTAGTGTAAAATAT
1 TTTTAAAAATAATAAAATTATAAATTAATACAGTGTAAAATAT
* *
3269973 TTTTAAAAATAAT-GAATTATAAATTAATACATTGTAAAAT
1 TTTTAAAAATAATAAAATTATAAATTAATACAGTGTAAAAT
3270013 CACATTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 22 0.65
43 12 0.35
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (43 bp):
TTTTAAAAATAATAAAATTATAAATTAATACAGTGTAAAATAT
Found at i:3270153 original size:2 final size:2
Alignment explanation
Indices: 3270146--3270177 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3270136 CATAAATTCC
3270146 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3270178 TAGTTGAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3278979 original size:14 final size:15
Alignment explanation
Indices: 3278954--3278983 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
3278944 GTTTTGTAAA
3278954 TGGACATTTATTATT
1 TGGACATTTATTATT
3278969 TGGAC-TTTATTATT
1 TGGACATTTATTATT
3278983 T
1 T
3278984 ATATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.23, C:0.07, G:0.13, T:0.57
Consensus pattern (15 bp):
TGGACATTTATTATT
Found at i:3281516 original size:10 final size:10
Alignment explanation
Indices: 3281501--3281539 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
3281491 TGCTTTTGTA
3281501 CATGATATGC
1 CATGATATGC
3281511 CATGATATGC
1 CATGATATGC
3281521 ACATGATATGC
1 -CATGATATGC
3281532 CATGATAT
1 CATGATAT
3281540 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:3281525 original size:21 final size:21
Alignment explanation
Indices: 3281500--3281539 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
3281490 CTGCTTTTGT
3281500 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
3281521 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
3281540 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:3285628 original size:9 final size:9
Alignment explanation
Indices: 3285606--3285704 Score: 60
Period size: 10 Copynumber: 10.6 Consensus size: 9
3285596 TGTAATTTTT
*
3285606 TTTTTACAA
1 TTTTTATAA
3285615 TTTTTTATAA
1 -TTTTTATAA
3285625 TTTTTAATAA
1 TTTTT-ATAA
*
3285635 TTTTTAAATA
1 TTTTTATA-A
3285645 TTTTGTATTAA
1 TTTT-TA-TAA
* *
3285656 ATTTAATAA
1 TTTTTATAA
3285665 TTTTT-TAAA
1 TTTTTAT-AA
* *
3285674 ATTTTATTGA
1 TTTTTA-TAA
3285684 TTTTTAT--
1 TTTTTATAA
3285691 TTTTTATAA
1 TTTTTATAA
3285700 TTTTT
1 TTTTT
3285705 TTGCCACATG
Statistics
Matches: 70, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
7 7 0.10
8 1 0.01
9 25 0.36
10 29 0.41
11 7 0.10
12 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:3285648 original size:30 final size:30
Alignment explanation
Indices: 3285605--3285678 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
3285595 ATGTAATTTT
* * *
3285605 TTTTTTACAATTTTTTA-TAATTTTTAATAA
1 TTTTTTAAAATTTTGTATTAA-ATTTAATAA
3285635 TTTTT-AAATATTTTGTATTAAATTTAATAA
1 TTTTTTAAA-ATTTTGTATTAAATTTAATAA
3285665 TTTTTTAAAATTTT
1 TTTTTTAAAATTTT
3285679 ATTGATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
29 2 0.05
30 30 0.79
31 6 0.16
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (30 bp):
TTTTTTAAAATTTTGTATTAAATTTAATAA
Found at i:3287344 original size:3 final size:3
Alignment explanation
Indices: 3287331--3287616 Score: 73
Period size: 3 Copynumber: 94.3 Consensus size: 3
3287321 AAAGGTTAAT
* * * *
3287331 TAA TTA TAA TAA TAGA -AA AAA TAA TAA TAGT TAA -AA TAA TAG TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* * * * **
3287376 TAG TAA -ATA TAA TGA TAA TAAA TAA TAA TAA TGA TAG TCG TAA TAA
1 TAA TAA TA-A TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* ** * * * * * *
3287422 TGA TAA TGG CAA TAAA TAA TAA TAG TGAA AAA TAA TGA TAG GAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
* * * * * *
3287469 TAA TGA TAA TATA TAA -AA TAA TAA TAA TGA TAG CAA -AA AAA AAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * ** * * ** **
3287513 GAA -AA TAA AAGA TGA TAA GGA TAA TAG CAA TAA TAA TGG TGC TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * *
3287558 CGA TAA TAAA TAA TAG TAG TAAA TAA -AA TAA TAA TAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
3287604 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
3287617 GCAAATAAGT
Statistics
Matches: 200, Mismatches: 66, Indels: 34
0.67 0.22 0.11
Matches are distributed among these distances:
2 12 0.06
3 168 0.84
4 20 0.10
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:3287371 original size:18 final size:17
Alignment explanation
Indices: 3287336--3287496 Score: 100
Period size: 18 Copynumber: 9.5 Consensus size: 17
3287326 TTAATTAATT
3287336 ATAATAATAG-AAAA-A
1 ATAATAATAGTAAAATA
3287351 ATAATAATAGTTAAAATA
1 ATAATAATAG-TAAAATA
*
3287369 ATAGTAATAGTAAATATA
1 ATAATAATAGTAAA-ATA
*
3287387 ATGATAATA--AATAATA
1 ATAATAATAGTAA-AATA
* **
3287403 ATAATGATAGTCGTAATA
1 ATAATAATAGT-AAAATA
* * * *
3287421 ATGATAATGGCAATA-A
1 ATAATAATAGTAAAATA
*
3287437 ATAATAATAGTGAAA-A
1 ATAATAATAGTAAAATA
* *
3287453 ATAATGATAGGAATAATA
1 ATAATAATAGTAA-AATA
* *
3287471 ATGATAATATATAAAATA
1 ATAATAATA-GTAAAATA
3287489 ATAATAAT
1 ATAATAAT
3287497 GATAGCAAAA
Statistics
Matches: 108, Mismatches: 27, Indels: 19
0.70 0.18 0.12
Matches are distributed among these distances:
15 10 0.09
16 34 0.31
17 12 0.11
18 50 0.46
19 2 0.02
ACGTcount: A:0.58, C:0.01, G:0.11, T:0.30
Consensus pattern (17 bp):
ATAATAATAGTAAAATA
Found at i:3295804 original size:30 final size:30
Alignment explanation
Indices: 3295783--3295845 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
3295773 ACTTAACAAG
*
3295783 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATCAA
* * *
3295813 CAAATGTCTTTAAAATAATAAAAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATCAA
3295843 CAA
1 CAA
3295846 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATCAA
Found at i:3296418 original size:20 final size:19
Alignment explanation
Indices: 3296389--3296435 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
3296379 CTTATAAATT
3296389 ATAAAATAAT--TA-TAAA
1 ATAAAATAATAATATTAAA
3296405 ATCAAAATAATAATATTAAA
1 AT-AAAATAATAATATTAAA
*
3296425 ATTAAATAATA
1 ATAAAATAATA
3296436 TAAAACATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 2 0.08
17 8 0.31
19 10 0.38
20 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAAAATAATAATATTAAA
Found at i:3301851 original size:22 final size:20
Alignment explanation
Indices: 3301814--3301865 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
3301804 CACTATCTAA
3301814 ACAATAAAAACAAAATAATT
1 ACAATAAAAACAAAATAATT
*
3301834 ACAATATAATAACGAAATAA-T
1 ACAATA-AA-AACAAAATAATT
3301855 --AATAAAAACAA
1 ACAATAAAAACAA
3301866 TAGCAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 4 0.14
18 2 0.07
19 4 0.14
20 6 0.21
21 3 0.11
22 9 0.32
ACGTcount: A:0.69, C:0.10, G:0.02, T:0.19
Consensus pattern (20 bp):
ACAATAAAAACAAAATAATT
Found at i:3305028 original size:27 final size:27
Alignment explanation
Indices: 3304978--3305056 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
3304968 TTGGGGTCTT
* **
3304978 CCTCATCTTCTTCCTCAGTTGAAGAC-
1 CCTCTTCTTCTTCCTCAGAAGAAGACA
*
3305004 CCTTCTTCTTCTTCCTCAGAAGAAGTCA
1 CC-TCTTCTTCTTCCTCAGAAGAAGACA
* * *
3305032 CCTCTTCATCTTCTTCAGAGGAAGA
1 CCTCTTCTTCTTCCTCAGAAGAAGA
3305057 AGCGGCTGGT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
26 2 0.05
27 39 0.91
28 2 0.05
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.34
Consensus pattern (27 bp):
CCTCTTCTTCTTCCTCAGAAGAAGACA
Found at i:3305806 original size:23 final size:23
Alignment explanation
Indices: 3305780--3305834 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
3305770 GAAACATAGA
3305780 AAAAAAATTTAATA-AAAAACTAT
1 AAAAAAATTTAATATAAAAA-TAT
* * * *
3305803 AAAAGATTTTTATATAGAAATAT
1 AAAAAAATTTAATATAAAAATAT
3305826 AAAAAAATT
1 AAAAAAATT
3305835 ATAAACATTA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (23 bp):
AAAAAAATTTAATATAAAAATAT
Found at i:3306066 original size:28 final size:27
Alignment explanation
Indices: 3306026--3306125 Score: 98
Period size: 28 Copynumber: 3.6 Consensus size: 27
3306016 TTTTTTATGC
3306026 ATTTTATATTTTTTTATGATTTTTATAAA
1 ATTTTATA-TTTTTTAT-ATTTTTATAAA
* *
3306055 ATTTTATATTTTTTCTAACTTTTA-ATAA
1 ATTTTATATTTTTTAT-ATTTTTATA-AA
3306083 A-TTT-TATTTTTTATATTTTTATTAAA
1 ATTTTATATTTTTTATATTTTTA-TAAA
* *
3306109 ATTTAATCTTTTTTATA
1 ATTTTATATTTTTTATA
3306126 AACTTTTTGC
Statistics
Matches: 59, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
25 6 0.10
26 12 0.20
27 7 0.12
28 26 0.44
29 8 0.14
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (27 bp):
ATTTTATATTTTTTATATTTTTATAAA
Found at i:3306392 original size:86 final size:84
Alignment explanation
Indices: 3306231--3306394 Score: 233
Period size: 86 Copynumber: 1.9 Consensus size: 84
3306221 TTATAACCAA
* *
3306231 AGGGCCTTTTTGATGCATTTGACAGTTCAAGTATCCAATTGAGTGAAAAAAAAATCAGGGCTTAA
1 AGGGCCTTTTTGATGCATTTGAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAATCAGGGCTTAA
*
3306296 TTGTTTTTTTTTTAAGTTTG
66 TTG-TGTTTTTTTAAGTTTG
*
3306316 AGGGCCTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAGT-AGGAGC
1 AGGGCCTTTTTGATGCA-TTTGAAAGTTCAAGTACCCAATTGAGTG-AAAAAAAAA-TCAGG-GC
3306380 TTAATTG-GTTTTTTT
62 TTAATTGTGTTTTTTT
3306395 GAATTTTTTA
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
85 16 0.23
86 33 0.46
87 12 0.17
88 10 0.14
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.38
Consensus pattern (84 bp):
AGGGCCTTTTTGATGCATTTGAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAATCAGGGCTTAA
TTGTGTTTTTTTAAGTTTG
Found at i:3307444 original size:21 final size:23
Alignment explanation
Indices: 3307397--3307444 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
3307387 AATAAATAAA
3307397 AAAATATATAATTATTAAATATT
1 AAAATATATAATTATTAAATATT
3307420 AAAATAATATAA-TA-TAAAT-TT
1 AAAAT-ATATAATTATTAAATATT
3307441 AAAA
1 AAAA
3307445 AAATTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.25
22 5 0.21
23 7 0.29
24 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATATATAATTATTAAATATT
Found at i:3308852 original size:17 final size:17
Alignment explanation
Indices: 3308830--3308864 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
3308820 ACTAAACCGA
3308830 CCACTAACTCCATCACC
1 CCACTAACTCCATCACC
3308847 CCACTAACTCCATCACC
1 CCACTAACTCCATCACC
3308864 C
1 C
3308865 TACTTGCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.54, G:0.00, T:0.17
Consensus pattern (17 bp):
CCACTAACTCCATCACC
Found at i:3309426 original size:11 final size:10
Alignment explanation
Indices: 3309387--3309424 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
3309377 TTTTCTTTTG
3309387 TATATTTTCAT
1 TATATTTT-AT
*
3309398 TCTATTTTAT
1 TATATTTTAT
3309408 TATATTTTAT
1 TATATTTTAT
3309418 T-TATTTT
1 TATATTTT
3309425 TTCTTTTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 6 0.24
10 12 0.48
11 7 0.28
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (10 bp):
TATATTTTAT
Found at i:3309481 original size:20 final size:21
Alignment explanation
Indices: 3309440--3309478 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
3309430 TTATGAACAT
3309440 TTTTTAAATATTATATTATTA
1 TTTTTAAATATTATATTATTA
3309461 TTTTT-AATA-TATATTATT
1 TTTTTAAATATTATATTATT
3309479 TATATTAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTAAATATTATATTATTA
Found at i:3316005 original size:64 final size:64
Alignment explanation
Indices: 3315925--3316051 Score: 209
Period size: 64 Copynumber: 2.0 Consensus size: 64
3315915 CATTCATAGT
* * *
3315925 ACATCTAGTTAGGAGCATTTCATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAGCATC
1 ACATCTAGCTAGGAGCATTTCATTCATTTCGATCATAGCATCCTAACTATTTGGCATAAGCATC
* *
3315989 ACATCTAGCTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAACTGTTTGGCATAAGCAT
1 ACATCTAGCTAGGAGCATTTCATTCATTTCGATCATAGCATCCTAACTATTTGGCATAAGCAT
3316052 ATATACATGA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (64 bp):
ACATCTAGCTAGGAGCATTTCATTCATTTCGATCATAGCATCCTAACTATTTGGCATAAGCATC
Found at i:3316394 original size:133 final size:134
Alignment explanation
Indices: 3316156--3316399 Score: 377
Period size: 133 Copynumber: 1.8 Consensus size: 134
3316146 AACAAGCTAT
* * *
3316156 AAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCC
1 AAATTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCAGAAATGACGAGTCTTATCTCC
**
3316221 ATGTATCGGCTATGGAACAGATTTTAGCCACAGGTCTTATC-CTCTTGAAGTTGTAGGAAGCAGA
66 ATGTATCGGCTATGGAACAGATTTTAGCCACAGCCCTTATCTCTCTTGAAGTTGTAGGAAGCAGA
3316285 TTGA
131 TTGA
* *
3316289 AAATTACAGATCTTATCTCCATGTATCAGCTATGGAGTAGATC-GAAAATGACGAGTTTTATCTC
1 AAATTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCAG-AAATGACGAGTCTTATCTC
*
3316353 CATGTATCGGCTATGGAGCAGATTTTAGCCACCA-CCCTTATCTCTCT
65 CATGTATCGGCTATGGAACAGATTTTAGCCA-CAGCCCTTATCTCTCT
3316400 GAGGTAGCAA
Statistics
Matches: 100, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
132 1 0.01
133 93 0.93
134 6 0.06
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (134 bp):
AAATTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCAGAAATGACGAGTCTTATCTCC
ATGTATCGGCTATGGAACAGATTTTAGCCACAGCCCTTATCTCTCTTGAAGTTGTAGGAAGCAGA
TTGA
Found at i:3316436 original size:133 final size:133
Alignment explanation
Indices: 3316163--3316439 Score: 339
Period size: 133 Copynumber: 2.1 Consensus size: 133
3316153 TATAAATTAT
* *
3316163 AGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATC
1 AGATCTTATCTCCATGTATCAGCTATGGAGCAGATCAGAAATGACGAGTCTTATCTCCATGTATC
** * * *
3316228 GGCTATGGAACAGATTTTAGCCACAGGTCTTATCCTCTTGAAGTTGTAGGAAGCAGATTGAAAAT
66 GGCTATGGAACAGATTTTAGCCACAGCCCTTATCCTCTTGAAGTAGCAAGAAGCAGATTGAAAAT
* *
3316293 TAC
131 AAA
* *
3316296 AGATCTTATCTCCATGTATCAGCTATGGAGTAGATC-GAAAATGACGAGTTTTATCTCCATGTAT
1 AGATCTTATCTCCATGTATCAGCTATGGAGCAGATCAG-AAATGACGAGTCTTATCTCCATGTAT
* * * *
3316360 CGGCTATGGAGCAGATTTTAGCCACCA-CCCTTAT-CTCTCTGAGGTAGCAAGAGAGTAGGTT-A
65 CGGCTATGGAACAGATTTTAGCCA-CAGCCCTTATCCTCT-TGAAGTAGCAAGA-AGCAGATTGA
3316422 AAGATAAA
127 AA-ATAAA
3316430 AG-TCTTATCT
1 AGATCTTATCT
3316440 TCCTGAAGTT
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
132 5 0.04
133 106 0.85
134 13 0.10
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (133 bp):
AGATCTTATCTCCATGTATCAGCTATGGAGCAGATCAGAAATGACGAGTCTTATCTCCATGTATC
GGCTATGGAACAGATTTTAGCCACAGCCCTTATCCTCTTGAAGTAGCAAGAAGCAGATTGAAAAT
AAA
Found at i:3316881 original size:45 final size:45
Alignment explanation
Indices: 3316832--3317042 Score: 175
Period size: 45 Copynumber: 4.7 Consensus size: 45
3316822 AAGTTATAGA
3316832 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGACGAG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGACGAG
* *** *** *
3316877 TCTTATCTCCATGTATCGGTTATGGAGCAGAT-TTTAGCCACTAG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGACGAG
* * * * * *
3316921 TATTATCTTCC-TGAAGT-TGC-A-GGAAGCAGA-CTGAAAAGTTA-TAG
1 TCTTATC-TCCATGTA-TCGGCTATGG-AGCAGATCAG-AAA-TGACGAG
*
3316965 ATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAG
1 -TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGACGAG
*
3317011 TCTTATCTCCATGTATCTGCTATGGAGCAGAT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
3317043 TTTAGCCACT
Statistics
Matches: 128, Mismatches: 25, Indels: 26
0.72 0.14 0.15
Matches are distributed among these distances:
42 2 0.02
43 8 0.06
44 23 0.18
45 79 0.62
46 12 0.09
47 4 0.03
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (45 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGACGAG
Found at i:3316905 original size:355 final size:355
Alignment explanation
Indices: 3316254--3316917 Score: 1044
Period size: 355 Copynumber: 1.9 Consensus size: 355
3316244 TTAGCCACAG
* * *
3316254 GTCTTATCCTCTTGAAGTTGTAGGAAGCAGATTGAAAATTACAGATCTTATCTCCATGTATCAGC
1 GTCTTATCCTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCAGC
* * * *
3316319 TATGGAGTAGATCGAAAATGACGAGTTTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
66 TATAGAGCAAATCGAAAATGACGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
* *
3316384 CCACCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTAAAGATAAAAGTCTTATCTTCCTGAAGT
131 CCACCCTCATCTCTCTAAGGTAGCAAGAGAGTAGGTTAAAGATAAAAGTCTTATCTTCCTGAAGT
* * *
3316449 TGCAGAAAGCAGACTGAAAATTTACAGATTTTATCTCCATGTATCGACTATGGAGCAGATCGAAA
196 TGCAGAAAGCAGACTAAAAAGTTACAGATCTTATCTCCATGTATCGACTATGGAGCAGATCGAAA
*
3316514 ATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTCATCTCTCTG
261 ATGACGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTCATCTCTCTG
3316579 AGGTAGCAAGAGAGCAGGTTGAAATTACAA
326 AGGTAGCAAGAGAGCAGGTTGAAATTACAA
* *
3316609 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGG
1 GTCTTATCCTCCTGAAGTTGCAGGAAGCAGACTGAAAA-TTACAGATCTTATCTCCATGTATCAG
* * *
3316674 CTATAGAGCAAATCGAAAATGGCGGGTCTTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCC
65 CTATAGAGCAAATCGAAAATGACGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
* * * * *
3316739 ACTAGCCTCATCTCTCTAAGGTAGCAAGAGAG-AGGTTGAAGATACAGGTCTTATCTTCCTGAAG
130 ACCACCCTCATCTCTCTAAGGTAGCAAGAGAGTAGGTTAAAGATAAAAGTCTTATCTTCCTGAAG
* * * *
3316803 TTGTAGGAAGCAGACTAAAAAGTTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATC-AG
195 TTGCAGAAAGCAGACTAAAAAGTTACAGATCTTATCTCCATGTATCGACTATGGAGCAGATCGA-
*
3316867 AAATGACGAGTCTTATCTCCATGTATCGGTTATGGAGCAGATTTTAGCCAC
259 AAATGACGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCAC
3316918 TAGTATTATC
Statistics
Matches: 279, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
354 1 0.00
355 167 0.60
356 111 0.40
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (355 bp):
GTCTTATCCTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCAGC
TATAGAGCAAATCGAAAATGACGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
CCACCCTCATCTCTCTAAGGTAGCAAGAGAGTAGGTTAAAGATAAAAGTCTTATCTTCCTGAAGT
TGCAGAAAGCAGACTAAAAAGTTACAGATCTTATCTCCATGTATCGACTATGGAGCAGATCGAAA
ATGACGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTCATCTCTCTG
AGGTAGCAAGAGAGCAGGTTGAAATTACAA
Found at i:3316920 original size:177 final size:178
Alignment explanation
Indices: 3316254--3316917 Score: 1012
Period size: 178 Copynumber: 3.7 Consensus size: 178
3316244 TTAGCCACAG
* * * * *
3316254 GTCTTATCCTCTTGAAGTTGTAGGAAGCAGATTGAAAA-TTACAGATCTTATCTCCATGTATCAG
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGG
* *
3316318 CTATGGAGTAGATCGAAAATGACGAGTTTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
66 CTATGGAGCAGATCGAAAATGACGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
* * * * *
3316383 ACCACCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTAAAGATAAAA
131 ACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
* * *
3316431 GTCTTATCTTCCTGAAGTTGCAGAAAGCAGACTGAAAATTTACAGATTTTATCTCCATGTATCGA
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGG
*
3316496 CTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
66 CTATGGAGCAGATCGAAAATGACGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
*
3316561 ACCAACCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAA-ATTACAA
131 ACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA-TACAA
3316609 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGG
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGG
* * * * *
3316674 CTATAGAGCAAATCGAAAATGGCGGGTCTTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCC
66 CTATGGAGCAGATCGAAAATGACGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
* * *
3316739 ACTAGCCTCATCTCTCTAAGGTAGCAAGAGAG-AGGTTGAAGATACAG
131 ACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
* * * *
3316786 GTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTAAAAAGTTATAGATCTTATCTCCATGTATCGG
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGG
*
3316851 CTATGGAGCAGATC-AGAAATGACGAGTCTTATCTCCATGTATCGGTTATGGAGCAGATTTTAGC
66 CTATGGAGCAGATCGA-AAATGACGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
3316915 CAC
130 CAC
3316918 TAGTATTATC
Statistics
Matches: 446, Mismatches: 37, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
176 1 0.00
177 166 0.37
178 279 0.63
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (178 bp):
GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGG
CTATGGAGCAGATCGAAAATGACGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
ACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
Found at i:3317196 original size:134 final size:133
Alignment explanation
Indices: 3316786--3317185 Score: 631
Period size: 134 Copynumber: 3.0 Consensus size: 133
3316776 GAAGATACAG
*
3316786 GTCTTATCTTCCTGAAGTTGTAGGAAGCAGACT-AAAAAGTTATAGATCTTATCTCCATGTATCG
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAA-TTATAGATCTTATCTCCATGTATCG
*
3316850 GCTATGGAGCAGATCAGAAATGACGAGTCTTATCTCCATGTATCGGTTATGGAGCAGATTTTAGC
65 GCTATGGAGCAGATCAGAAATG-CGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
3316915 CACTA
129 CACTA
* *
3316920 GTATTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTATAGATCTTATCTCCATGTATCGG
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAATTATAGATCTTATCTCCATGTATCGG
*
3316985 CTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCTGCTATGGAGCAGATTTTAGCC
66 CTATGGAGCAGATCAGAAAT-GCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
3317050 ACTA
130 ACTA
* * * *
3317054 GTCTTATCTTTCTGAAGTTGCAGGAAGCAAACTGAAAAATTACAGATCTTATCTCCATGTATCGA
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAATTATAGATCTTATCTCCATGTATCGG
* * * * *
3317119 CAATGGAGTAGATAAAAAATAGCGAGTTTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
66 CTATGGAGCAGATCAGAAAT-GCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
3317184 AC
130 AC
3317186 CGGCCTTATC
Statistics
Matches: 246, Mismatches: 18, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
134 241 0.98
135 5 0.02
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (133 bp):
GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAATTATAGATCTTATCTCCATGTATCGG
CTATGGAGCAGATCAGAAATGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
CTA
Found at i:3317281 original size:311 final size:312
Alignment explanation
Indices: 3316430--3317361 Score: 1063
Period size: 311 Copynumber: 3.0 Consensus size: 312
3316420 TAAAGATAAA
* * * *
3316430 AGTCTTATCTTCCTGAAGTTGCAGAAAGCAGACTGAAAATTTACAGATTTTATCTCCATGTATCG
1 AGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACTGAAAAATTACAGATCTTATCTCCATGTATCG
** *
3316495 ACTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
66 ACTATGGAGCAGATAAAAAATAGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
** * * * * *
3316560 CACCAACCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAA-ATTACAAGTCTTATCTTCCTGA
131 CACCGGCCTTATCTATCTAAGGTAGCAAGAGAGCAAGTTGAAGA-TACTAGTCTTATCTTCCTGA
* * * *
3316624 AGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGGCTATAGAGCAAATC-
195 AGTTGCAGGAAGCAGACTGAAAAGTTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCA
* *
3316688 GAAAATGGCGGGTCTTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACT
260 G-AAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACT
* * * * * ** * * *
3316742 AGCCTCATCTCTCT-AAGGTAGCAAGAGAG-AGGTTG-AAGA-TACAGGTCTTATCTTCC-TGAA
1 AGTCTTATCTTTCTGAA-GTTGCAGGA-AGCAGACTGAAAAATTACAGATCTTATC-TCCATGTA
* * **
3316802 GTTG--TA-GGAAGCAGACTAAAAAGTTATAGA-TCTTATCTCCATGTATCGGCTATGGAGCAGA
63 -TCGACTATGG-AGCAGA-TAAAAA-ATAGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGA
* ** * * * * * * ** **
3316863 --TCAGAAATGACGAGTCTTATCTCCATGTATCGGT--TATG-GAGC-AGATTTTAGCCACTAGT
124 TTTTAGCCA--CCG-GCCTTATCT--ATCTA-AGGTAGCAAGAGAGCAAG-TTGAAGATACTAGT
*
3316922 ATTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTATAGATCTTATCTCCATGTATCGGCT
182 CTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTATAGATCTTATCTCCATGTATCGGCT
*
3316987 ATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCTGCTATGGAGCAGATTTTAGCCAC
247 ATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCAC
3317052 T
312 T
*
3317053 AGTCTTATCTTTCTGAAGTTGCAGGAAGCAAACTGAAAAATTACAGATCTTATCTCCATGTATCG
1 AGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACTGAAAAATTACAGATCTTATCTCCATGTATCG
* * *
3317118 ACAATGGAGTAGATAAAAAATAGCGAGTTTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
66 ACTATGGAGCAGATAAAAAATAGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
*
3317183 CACCGGCCTTATCTATCTAAGGTAGCAAGAGAGCAAGTTGAAGATACTAGTCTTATCTTCTTGAA
131 CACCGGCCTTATCTATCTAAGGTAGCAAGAGAGCAAGTTGAAGATACTAGTCTTATCTTCCTGAA
* * * *
3317248 GTTGCAAGAAGCAGACTGAAAA-TTATGGATCTTATCTCCATATATCAGCTATGGAGCAGATCAG
196 GTTGCAGGAAGCAGACTGAAAAGTTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAG
*
3317312 AAATGGCAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
261 AAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
3317362 TTGACCTCAT
Statistics
Matches: 501, Mismatches: 88, Indels: 63
0.77 0.13 0.10
Matches are distributed among these distances:
308 6 0.01
309 11 0.02
310 57 0.11
311 261 0.52
312 92 0.18
313 59 0.12
314 9 0.02
315 6 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (312 bp):
AGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACTGAAAAATTACAGATCTTATCTCCATGTATCG
ACTATGGAGCAGATAAAAAATAGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
CACCGGCCTTATCTATCTAAGGTAGCAAGAGAGCAAGTTGAAGATACTAGTCTTATCTTCCTGAA
GTTGCAGGAAGCAGACTGAAAAGTTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAG
AAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACT
Found at i:3317418 original size:177 final size:178
Alignment explanation
Indices: 3317056--3317429 Score: 429
Period size: 177 Copynumber: 2.1 Consensus size: 178
3317046 AGCCACTAGT
* *
3317056 CTTATCTT-TCTGAAGTTGCAGGAAGCAAACTGAAAAATTACAGATCTTATCTCCATGTATCGAC
1 CTTATCTTCT-TGAAGTTGCAAGAAGCAAACTGAAAAATTACAGATCTTATCTCCATATATCGAC
* * *
3317120 AATGGAGTAGATAAAAAATAGCGAGTTTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
65 AATGGAGCAGATAAAAAATAGCAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
* * * * **
3317185 CCGGCCTTATCTATCTAAGGTAGCAAGAGAGCAAGTTGAAGATACTAGT
130 CCGACCTCATCTACCTAAGGTAGCAAGAGAACAAGTTGAAGATACTAAA
* **
3317234 CTTATCTTCTTGAAGTTGCAAGAAGCAGACTG-AAAATTATGGATCTTATCTCCATATATC-AGC
1 CTTATCTTCTTGAAGTTGCAAGAAGCAAACTGAAAAATTACAGATCTTATCTCCATATATCGA-C
* * * *
3317297 TATGGAGCAGATCAGAAATGGCAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
65 AATGGAGCAGATAAAAAATAGCAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
** * * * *
3317362 TTGACCTCATCTCCCTGAA-GTTGC-AGTGGAACAGGTTGAA-ATTAC-AAA
130 CCGACCTCATCTACCT-AAGGTAGCAAG-AGAACAAGTTGAAGA-TACTAAA
3317410 CGTTATCTTCTTGAAGTTGC
1 C-TTATCTTCTTGAAGTTGC
3317430 TGTAGGACTA
Statistics
Matches: 166, Mismatches: 24, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
176 6 0.04
177 129 0.78
178 30 0.18
179 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (178 bp):
CTTATCTTCTTGAAGTTGCAAGAAGCAAACTGAAAAATTACAGATCTTATCTCCATATATCGACA
ATGGAGCAGATAAAAAATAGCAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCAC
CGACCTCATCTACCTAAGGTAGCAAGAGAACAAGTTGAAGATACTAAA
Found at i:3317656 original size:17 final size:17
Alignment explanation
Indices: 3317634--3317668 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
3317624 ACTAAACCGA
3317634 CCACTAACTCCATCACC
1 CCACTAACTCCATCACC
3317651 CCACTAACTCCATCACC
1 CCACTAACTCCATCACC
3317668 C
1 C
3317669 TATTTACCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.54, G:0.00, T:0.17
Consensus pattern (17 bp):
CCACTAACTCCATCACC
Found at i:3317704 original size:13 final size:13
Alignment explanation
Indices: 3317686--3317711 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3317676 CACTAATTCC
3317686 ATCACCCCACTAA
1 ATCACCCCACTAA
3317699 ATCACCCCACTAA
1 ATCACCCCACTAA
3317712 CCCTATTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (13 bp):
ATCACCCCACTAA
Found at i:3318286 original size:21 final size:22
Alignment explanation
Indices: 3318241--3318283 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3318231 TTTTATGAAC
3318241 ATTTTTTAAATATTATATTATT
1 ATTTTTTAAATATTATATTATT
*
3318263 ATTTTTATATATATTAT-TTAT
1 ATTTTT-TAAATATTATATTAT
3318284 ATTAAGCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTTTTTAAATATTATATTATT
Found at i:3325417 original size:23 final size:22
Alignment explanation
Indices: 3325366--3325422 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
3325356 CAACCAAACC
*
3325366 AATTCAACATATTTTCAAGATA
1 AATTCATCATATTTTCAAGATA
3325388 AATTCATGCATATTTAT-AAGAT-
1 AATTCAT-CATATTT-TCAAGATA
3325410 AATGTCATCATAT
1 AAT-TCATCATAT
3325423 ACCCAAAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 14 0.45
23 16 0.52
24 1 0.03
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (22 bp):
AATTCATCATATTTTCAAGATA
Found at i:3329485 original size:19 final size:20
Alignment explanation
Indices: 3329463--3329507 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
3329453 CAAACCCTAA
3329463 TTCTCCCTTT-TTAT-TTTCT
1 TTCTCCCTTTCTT-TCTTTCT
3329482 TTCT-CCTTTCTTTCTTTCT
1 TTCTCCCTTTCTTTCTTTCT
3329501 TTC-CCCT
1 TTCTCCCT
3329508 GCTTTTCGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCTCCCTTTCTTTCTTTCT
Found at i:3330033 original size:14 final size:14
Alignment explanation
Indices: 3330016--3330058 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
3330006 TCTTATAATA
3330016 TAATTATAATAAAT
1 TAATTATAATAAAT
3330030 TAATT-TAATATAAT
1 TAATTATAATA-AAT
*
3330044 TTATTACTAATAAAT
1 TAATTA-TAATAAAT
3330059 ATATATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.20
14 12 0.48
15 3 0.12
16 5 0.20
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATTATAATAAAT
Found at i:3332795 original size:132 final size:132
Alignment explanation
Indices: 3332558--3332800 Score: 355
Period size: 132 Copynumber: 1.8 Consensus size: 132
3332548 TTGCCTCGCC
* * * * * *
3332558 TTAGAAAACACGAATGAAATTCTGAAGGGATATTCGATTATTTTGAACAAATGGGAGATTGCAAC
1 TTAGAAAACACAAATGAAATTCTAAAGAGATATTCGATTATTTTGAACAAACGAGAAATTGCAAC
* *
3332623 CCAGCACGATAGGGCGCTATTCCTCAAATTGCTAAACATCGAACATTTCCTTCATTTTAAAAAGT
66 CCAGCACGATAGGGCACGATTCCTCAAATTGCTAAACATCGAACATTTCCTTCATTTTAAAAAGT
3332688 TT
131 TT
* *
3332690 TTAGAAAACACAAATGAAATTCTAAAGAGATATTTGATTATTTTGAGCAAACGAGAAATTGCAAC
1 TTAGAAAACACAAATGAAATTCTAAAGAGATATTCGATTATTTTGAACAAACGAGAAATTGCAAC
*
3332755 CCAGCAC-AGTAGGGCACGATTCCTCGAATTG-TCAAACATCGAACAT
66 CCAGCACGA-TAGGGCACGATTCCTCAAATTGCT-AAACATCGAACAT
3332801 CGCCTCCGTC
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
131 2 0.02
132 96 0.98
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (132 bp):
TTAGAAAACACAAATGAAATTCTAAAGAGATATTCGATTATTTTGAACAAACGAGAAATTGCAAC
CCAGCACGATAGGGCACGATTCCTCAAATTGCTAAACATCGAACATTTCCTTCATTTTAAAAAGT
TT
Found at i:3362477 original size:21 final size:21
Alignment explanation
Indices: 3362451--3362491 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3362441 ATCTGCTCAA
* *
3362451 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
3362472 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
3362492 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:3374362 original size:18 final size:19
Alignment explanation
Indices: 3374311--3374368 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 19
3374301 TTTTTAAAAT
3374311 AAAATTCTAAAGAATATATAA
1 AAAATTCT-AA-AATATATAA
**
3374332 AGAAATTAAAAAATATA-AA
1 A-AAATTCTAAAATATATAA
3374351 AAAATTCTAAAATA-ATAA
1 AAAATTCTAAAATATATAA
3374369 TTTTTTGGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
17 1 0.03
18 13 0.42
19 3 0.10
20 6 0.19
21 3 0.10
22 5 0.16
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (19 bp):
AAAATTCTAAAATATATAA
Found at i:3382165 original size:11 final size:11
Alignment explanation
Indices: 3382151--3382193 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
3382141 ATATTACAAT
3382151 TATTTATTAAA
1 TATTTATTAAA
3382162 TATTTATTAAA
1 TATTTATTAAA
* *
3382173 -ATTATAATATA
1 TATT-TATTAAA
3382184 TATTTATTAA
1 TATTTATTAA
3382194 TATAATTGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 3 0.12
11 20 0.77
12 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TATTTATTAAA
Found at i:3382854 original size:23 final size:23
Alignment explanation
Indices: 3382817--3382868 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
3382807 TTTTTTTTTA
* *
3382817 TTTTATTTAATTTTATAATATAT
1 TTTTATCTAAGTTTATAATATAT
**
3382840 TTTTATCTAAGTTTATTTTATAT
1 TTTTATCTAAGTTTATAATATAT
3382863 TTTTAT
1 TTTTAT
3382869 ACATAATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTATCTAAGTTTATAATATAT
Found at i:3384527 original size:17 final size:17
Alignment explanation
Indices: 3384507--3384540 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3384497 TTCACATACT
3384507 AAATATAATAAAT-TAAA
1 AAATATAA-AAATGTAAA
3384524 AAATATAAAAATGTAAA
1 AAATATAAAAATGTAAA
3384541 TAAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
AAATATAAAAATGTAAA
Found at i:3407250 original size:5 final size:5
Alignment explanation
Indices: 3407240--3407306 Score: 57
Period size: 5 Copynumber: 12.8 Consensus size: 5
3407230 AATATTTAAC
* *
3407240 TAAAA TAAAA TAAAA TAAAA TAATAA -ATAA TAAAA TAAAA GAAAGA -AAAA
1 TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA TAAAA TAAA-A TAAAA
3407290 TAATAAA TAAAAA TAAA
1 T-A-AAA T-AAAA TAAA
3407307 GATTGGGTTG
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
4 3 0.06
5 36 0.68
6 8 0.15
7 6 0.11
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:3407307 original size:23 final size:24
Alignment explanation
Indices: 3407247--3407308 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
3407237 AACTAAAATA
*
3407247 AAAT-AAAATAAAATAATAAATAAT
1 AAATAAAAAT-AAAGAATAAATAAT
*
3407271 AAA-ATAAAAGAAAGAA-AAATAAT
1 AAATA-AAAATAAAGAATAAATAAT
3407294 AAATAAAAATAAAGA
1 AAATAAAAATAAAGA
3407309 TTGGGTTGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 19 0.59
24 9 0.28
25 4 0.12
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (24 bp):
AAATAAAAATAAAGAATAAATAAT
Found at i:3412761 original size:3 final size:3
Alignment explanation
Indices: 3412753--3412779 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3412743 AAATTAAAAC
3412753 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
3412780 CTTTTACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3416401 original size:13 final size:13
Alignment explanation
Indices: 3416383--3416409 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3416373 TCACCTCTCT
3416383 CTTATTTGTACAA
1 CTTATTTGTACAA
3416396 CTTATTTGTACAA
1 CTTATTTGTACAA
3416409 C
1 C
3416410 ATGCATACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (13 bp):
CTTATTTGTACAA
Found at i:3424026 original size:2 final size:2
Alignment explanation
Indices: 3424019--3424046 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3424009 ATTTGGTACA
3424019 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3424047 TTATTTACGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3424855 original size:20 final size:20
Alignment explanation
Indices: 3424825--3424879 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
3424815 TGATCTGACT
3424825 CAAATGTATCGATACCCTTAA
1 CAAA-GTATCGATACCCTTAA
* *
3424846 CAAAGTATCGATACCTTTCA
1 CAAAGTATCGATACCCTTAA
3424866 CAAAAGTATCGATA
1 C-AAAGTATCGATA
3424880 TCATGCCTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (20 bp):
CAAAGTATCGATACCCTTAA
Found at i:3424873 original size:21 final size:21
Alignment explanation
Indices: 3424825--3424879 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
3424815 TGATCTGACT
*
3424825 CAAATGTATCGATACCCTTAA
1 CAAAAGTATCGATACCCTTAA
* *
3424846 C-AAAGTATCGATACCTTTCA
1 CAAAAGTATCGATACCCTTAA
3424866 CAAAAGTATCGATA
1 CAAAAGTATCGATA
3424880 TCATGCCTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (21 bp):
CAAAAGTATCGATACCCTTAA
Found at i:3427484 original size:13 final size:13
Alignment explanation
Indices: 3427466--3427498 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
3427456 TTAAAAATTT
3427466 ATATAAATACTAA
1 ATATAAATACTAA
3427479 ATATAAATACTAA
1 ATATAAATACTAA
3427492 ATATAAA
1 ATATAAA
3427499 AATAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (13 bp):
ATATAAATACTAA
Found at i:3428843 original size:20 final size:22
Alignment explanation
Indices: 3428809--3428861 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
3428799 TTCGAAACTT
*
3428809 TTTTTTTAGATAATT-ACATTTA
1 TTTTTTTA-ATAATTAACAGTTA
*
3428831 TTTTTTTAA-AATTAAGAGTTA
1 TTTTTTTAATAATTAACAGTTA
3428852 TTTTTTTAAT
1 TTTTTTTAAT
3428862 TGCATGTACG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 4 0.15
21 15 0.56
22 8 0.30
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (22 bp):
TTTTTTTAATAATTAACAGTTA
Found at i:3429607 original size:36 final size:36
Alignment explanation
Indices: 3429566--3429636 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
3429556 AAAAGAAGGG
*
3429566 GTGAATTGCATATTAATAATTAAGAAACAAAATATT
1 GTGAATTGCATATTAAAAATTAAGAAACAAAATATT
*
3429602 GTGAATTGCATATTAAAAATTAATAAACAAAATAT
1 GTGAATTGCATATTAAAAATTAAGAAACAAAATAT
3429637 ATTGGTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (36 bp):
GTGAATTGCATATTAAAAATTAAGAAACAAAATATT
Found at i:3429685 original size:20 final size:20
Alignment explanation
Indices: 3429643--3429686 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
3429633 ATATATTGGT
* * *
3429643 TTTTTAGTTAAAATTACATA
1 TTTTTAATTAAAATAACAAA
*
3429663 TTTTTAATTAAAATAATAAA
1 TTTTTAATTAAAATAACAAA
3429683 TTTT
1 TTTT
3429687 ACAAGGAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTTTAATTAAAATAACAAA
Found at i:3432121 original size:30 final size:30
Alignment explanation
Indices: 3432081--3432154 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
3432071 TATATATATA
* * *
3432081 TTTATAATTTTTAAAAGATTAAATTAAAAT
1 TTTATCATTTTTAAAAGAGTAAAATAAAAT
* * *
3432111 TTTATCATTTTTAGAAGGGTAAAATACAAT
1 TTTATCATTTTTAAAAGAGTAAAATAAAAT
3432141 TTTATC-TTTATTAA
1 TTTATCATTT-TTAA
3432155 TTTAAATATT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 3 0.08
30 33 0.92
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (30 bp):
TTTATCATTTTTAAAAGAGTAAAATAAAAT
Found at i:3433453 original size:23 final size:24
Alignment explanation
Indices: 3433427--3433471 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
3433417 AATATTTAAT
*
3433427 TAAATATT-TAAAAATTATAAAGA
1 TAAATATTATAAAAATAATAAAGA
*
3433450 TAAATATTATTAAAATAATAAA
1 TAAATATTATAAAAATAATAAA
3433472 ATTATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
TAAATATTATAAAAATAATAAAGA
Found at i:3441072 original size:15 final size:15
Alignment explanation
Indices: 3441048--3441080 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
3441038 AACATTGGGG
3441048 TAAT-ATTAAATATA
1 TAATAATTAAATATA
3441062 TAATAATTAAATATA
1 TAATAATTAAATATA
3441077 -AATA
1 TAATA
3441081 CAATGTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAATAATTAAATATA
Found at i:3458433 original size:73 final size:72
Alignment explanation
Indices: 3458218--3458454 Score: 296
Period size: 73 Copynumber: 3.2 Consensus size: 72
3458208 TGATATTTTT
* * * *
3458218 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGT
3458283 ATTTTCA
66 ATTTTCA
**
3458290 ATTTTCT-TCTCTAAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGC
1 A-TTTCTGT-T-T---TCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGC
*
3458354 TGAGGTAATTTCA
60 TGAGGTATTTTCA
* * * *
3458367 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACTAAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGG
3458432 TATTTTCA
65 TATTTTCA
3458440 ATTTCTGCTTTTCAA
1 ATTTCTG-TTTTCAA
3458455 TTTCTACTTT
Statistics
Matches: 142, Mismatches: 15, Indels: 15
0.83 0.09 0.09
Matches are distributed among these distances:
72 2 0.01
73 72 0.51
74 4 0.03
75 1 0.01
76 6 0.04
77 57 0.40
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (72 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGT
ATTTTCA
Found at i:3458453 original size:14 final size:14
Alignment explanation
Indices: 3458434--3458468 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
3458424 CACTAAGGTA
*
3458434 TTTTCAATTTCTGC
1 TTTTCAATTTCTAC
3458448 TTTTCAATTTCTAC
1 TTTTCAATTTCTAC
3458462 TTTTCAA
1 TTTTCAA
3458469 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.03, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCTAC
Found at i:3458483 original size:162 final size:158
Alignment explanation
Indices: 3458305--3458838 Score: 626
Period size: 162 Copynumber: 3.3 Consensus size: 158
3458295 CTTCTCTAAA
*
3458305 AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
* *
3458370 TCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACA-CTAAGGTA
66 TCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACAGCCAAGGTA
3458434 TTTTCAATTTCTGCTTTTCAATTTCTACTTTTC
131 TTTTCAATTTCT--TTTTCAA-TT-TA-TTTTC
* * *
3458467 AAAAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTCAGGACACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
* * *
3458532 TCTATTTTTCAAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGTCACATGCCAAGG
66 TCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CACA-GCCAAGG
*
3458596 TATTTTCAA------TTT--A--T-GTTTC
129 TATTTTCAATTTCTTTTTCAATTTATTTTC
* *
3458615 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACGCTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-AG-GACACGCTGAGGTATTTTCAA
* * * * *
3458680 TTCCTGTTTTTTTAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCC
64 TTTCTG--TTTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACA-GCC
*
3458745 GAGGTATTTTCAATTTCTATTTTTCAATTTATGTTTC
125 AAGGTATTTTCAATTTC--TTTTTCAATTTAT-TTTC
* * *
3458782 AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCTTCAGGTCATACGCTGAGGT
1 AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGG--ACACGCTGAGGT
3458839 GAGTTGAGCC
Statistics
Matches: 318, Mismatches: 29, Indels: 45
0.81 0.07 0.11
Matches are distributed among these distances:
148 42 0.13
149 2 0.01
150 25 0.08
152 10 0.03
153 48 0.15
154 3 0.01
156 3 0.01
161 6 0.02
162 109 0.34
163 1 0.00
164 14 0.04
165 1 0.00
166 2 0.01
167 52 0.16
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (158 bp):
AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
TCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACAGCCAAGGTA
TTTTCAATTTCTTTTTCAATTTATTTTC
Found at i:3458522 original size:89 final size:89
Alignment explanation
Indices: 3458380--3458543 Score: 265
Period size: 89 Copynumber: 1.8 Consensus size: 89
3458370 TCTGTTTGTC
* * *
3458380 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACTAAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTCAGGACACACTAAGGTATTTTCAATTTC
*
3458445 TGCTTTTCAATTTCTACTTTTCAA
66 TACTTTTCAATTTCTACTTTTCAA
* *
3458469 AAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTCAGGACACACTAAGGTATTTTCAATTTC
*
3458534 TATTTTTCAA
66 TACTTTTCAA
3458544 AAATCAATTC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 68 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (89 bp):
AAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTCAGGACACACTAAGGTATTTTCAATTTC
TACTTTTCAATTTCTACTTTTCAA
Found at i:3458597 original size:75 final size:75
Alignment explanation
Indices: 3458448--3458771 Score: 404
Period size: 75 Copynumber: 4.3 Consensus size: 75
3458438 CAATTTCTGC
* *
3458448 TTTTCAATTTCTACTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTCAGG--A
1 TTTTCAATTTCTATTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCA
*
3458511 CACGCTGAGGTA
64 CACGCCGAGGTA
* * * *
3458523 TTTTCAATTTCTATTTTTCAAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACA
* *
3458588 TGCCAAGGTA
66 CGCCGAGGTA
* * *
3458598 TTTTCAA-TT-TATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCA
1 TTTTCAATTTCTATTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCA
*
3458661 CACGCTGAGGTA
64 CACGCCGAGGTA
* * * *
3458673 TTTTCAATTCCTGTTTTTTTAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTAAGCCTCAGGTC
1 TTTTCAATT--TCTATTTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTC
3458738 ACACGCCGAGGTA
63 ACACGCCGAGGTA
3458751 TTTTCAATTTCTATTTTTCAA
1 TTTTCAATTTCTATTTTTCAA
3458772 TTTATGTTTC
Statistics
Matches: 213, Mismatches: 27, Indels: 17
0.83 0.11 0.07
Matches are distributed among these distances:
73 43 0.20
74 2 0.01
75 91 0.43
76 10 0.05
77 5 0.02
78 57 0.27
79 5 0.02
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (75 bp):
TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACA
CGCCGAGGTA
Found at i:3458758 original size:153 final size:148
Alignment explanation
Indices: 3458463--3458760 Score: 434
Period size: 153 Copynumber: 2.0 Consensus size: 148
3458453 AATTTCTACT
*
3458463 TTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTCAGGACACGCTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTCAGCACACGCTGAGGTATTTTC
* * * * * *
3458528 AATTTCTATTTTTCAAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCCTCGGGTCACATGCCA
66 AATTTCTATTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCCA
3458593 AGGTATTTTCAATTTATG
131 AGGTATTTTCAATTTATG
* *
3458611 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACGCTGAGGTATTT
1 TTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTC-AG-CACACGCTGAGGTATTT
* * *
3458676 TCAATTCCTGTTTTTTTAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTAAGCCTCAGGTCACA
64 TCAATT--TCTATTTTTAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACA
*
3458741 CGCCGAGGTATTTTCAATTT
126 CGCCAAGGTATTTTCAATTT
3458761 CTATTTTTCA
Statistics
Matches: 132, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
148 42 0.32
149 2 0.02
150 22 0.17
152 12 0.09
153 54 0.41
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (148 bp):
TTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTCAGCACACGCTGAGGTATTTTC
AATTTCTATTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCCA
AGGTATTTTCAATTTATG
Found at i:3458842 original size:29 final size:29
Alignment explanation
Indices: 3458809--3458865 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
3458799 TTGCGAGAAA
*
3458809 TGAGTTGAG-CTTCAGGTCATACGCTGAGG
1 TGAGTTGAGCCTTCA-GTCACACGCTGAGG
*
3458838 TGAGTTGAGCCTTGAGTCACACGCTGAG
1 TGAGTTGAGCCTTCAGTCACACGCTGAG
3458866 AATAAAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.26
Consensus pattern (29 bp):
TGAGTTGAGCCTTCAGTCACACGCTGAGG
Found at i:3460540 original size:25 final size:24
Alignment explanation
Indices: 3460507--3460554 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
3460497 TCATGTTATA
3460507 TATAGTATTATTATCACTATATTTT
1 TATAGTATTATTAT-ACTATATTTT
* *
3460532 TATATTATTATTATATTATATTT
1 TATAGTATTATTATACTATATTT
3460555 AGCTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (24 bp):
TATAGTATTATTATACTATATTTT
Found at i:3461037 original size:21 final size:21
Alignment explanation
Indices: 3461013--3461068 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 21
3461003 TCATATAGTG
3461013 TTATATTTATTATTAT-ACTTA
1 TTAT-TTTATTATTATCACTTA
3461034 TTATTTTCATTATTATCACTTA
1 TTATTTT-ATTATTATCACTTA
*
3461056 TTGTTTTATTATT
1 TTATTTTATTATT
3461069 GTGTGTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (21 bp):
TTATTTTATTATTATCACTTA
Found at i:3461180 original size:21 final size:21
Alignment explanation
Indices: 3461140--3461180 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3461130 TTGTTGTTAG
* *
3461140 TATATATGTATATATCTTTAA
1 TATATATCTATATATATTTAA
*
3461161 TATATATCTGTATATATTTA
1 TATATATCTATATATATTTA
3461181 TGCAATACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (21 bp):
TATATATCTATATATATTTAA
Found at i:3461412 original size:19 final size:18
Alignment explanation
Indices: 3461384--3461420 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
3461374 TATTCGTTTG
*
3461384 ATATTATTATGTGTATAT
1 ATATTATTATGTATATAT
3461402 ATATATATTATGTATATAT
1 ATAT-TATTATGTATATAT
3461421 TTGGTACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (18 bp):
ATATTATTATGTATATAT
Found at i:3465589 original size:20 final size:20
Alignment explanation
Indices: 3465564--3465601 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
3465554 TTGTTATTTT
3465564 TTGAAAGTTGAGTGACTGAA
1 TTGAAAGTTGAGTGACTGAA
3465584 TTGAAAGTTGAGTGACTG
1 TTGAAAGTTGAGTGACTG
3465602 TTTTGTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.32
Consensus pattern (20 bp):
TTGAAAGTTGAGTGACTGAA
Found at i:3467761 original size:6 final size:6
Alignment explanation
Indices: 3467750--3467777 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
3467740 TAATGGGGTG
3467750 CATATA CATATA CATATA CATATA CATA
1 CATATA CATATA CATATA CATATA CATA
3467778 GAGAGTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (6 bp):
CATATA
Found at i:3472963 original size:23 final size:21
Alignment explanation
Indices: 3472925--3472967 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
3472915 TCAAAACATA
3472925 AATATTCAAACATACAATCTTC
1 AATATTCAAACATAC-ATCTTC
3472947 AATATTTCAAA-ACTACATCTT
1 AATA-TTCAAACA-TACATCTT
3472968 TCAACCCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (21 bp):
AATATTCAAACATACATCTTC
Found at i:3473409 original size:35 final size:35
Alignment explanation
Indices: 3473366--3473572 Score: 276
Period size: 35 Copynumber: 6.0 Consensus size: 35
3473356 CGATTCACAA
* * * *
3473366 CTCAGTATGGTTAATACCATACCTACGTTTCACAA
1 CTCAGTATGGATAATACCATACCTACGTATCATAG
** *
3473401 CTTGGTATGGGAT-ATACCATACCTACGTATTATAG
1 CTCAGTAT-GGATAATACCATACCTACGTATCATAG
* *
3473436 CTCAATATGGA-AATACCATACATACGTATCATAG
1 CTCAGTATGGATAATACCATACCTACGTATCATAG
*
3473470 CTCAATATGGATAATACCATACCTACGTATCATAG
1 CTCAGTATGGATAATACCATACCTACGTATCATAG
*
3473505 CTCAGTAT-GAAAATACCATACCTACGTATCATAG
1 CTCAGTATGGATAATACCATACCTACGTATCATAG
*
3473539 CTCAGTATGGATAATACCATACCTACGTGTCATA
1 CTCAGTATGGATAATACCATACCTACGTATCATA
3473573 ACTTTTCCAT
Statistics
Matches: 151, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
34 67 0.44
35 81 0.54
36 3 0.02
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (35 bp):
CTCAGTATGGATAATACCATACCTACGTATCATAG
Found at i:3473489 original size:69 final size:69
Alignment explanation
Indices: 3473410--3473572 Score: 265
Period size: 69 Copynumber: 2.4 Consensus size: 69
3473400 ACTTGGTATG
* *
3473410 GGAT-ATACCATACCTACGTATTATAGCTCAATATGGAAATACCATACATACGTATCATAGCTCA
1 GGATAATACCATACCTACGTATCATAGCTCAATATGAAAATACCATACATACGTATCATAGCTCA
3473474 ATAT
66 ATAT
* *
3473478 GGATAATACCATACCTACGTATCATAGCTCAGTATGAAAATACCATACCTACGTATCATAGCTCA
1 GGATAATACCATACCTACGTATCATAGCTCAATATGAAAATACCATACATACGTATCATAGCTCA
*
3473543 GTAT
66 ATAT
*
3473547 GGATAATACCATACCTACGTGTCATA
1 GGATAATACCATACCTACGTATCATA
3473573 ACTTTTCCAT
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
68 4 0.05
69 84 0.95
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (69 bp):
GGATAATACCATACCTACGTATCATAGCTCAATATGAAAATACCATACATACGTATCATAGCTCA
ATAT
Found at i:3475237 original size:6 final size:6
Alignment explanation
Indices: 3475220--3475251 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
3475210 TGACACCTTC
3475220 TCCCCTT TCCCCT TCCCCT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT T
3475252 GGGTTGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
TCCCCT
Found at i:3475334 original size:25 final size:26
Alignment explanation
Indices: 3475306--3475359 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
3475296 CATCTCCTTC
* *
3475306 TCCTTCTTCCGTTTTTCAT-TTCTTT
1 TCCTTCTTCCGTTCTTCATCTTCTCT
*
3475331 TCCTTCTTCTGTTCTTCATCTTCTCT
1 TCCTTCTTCCGTTCTTCATCTTCTCT
3475357 TCC
1 TCC
3475360 AGGTAAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.04, C:0.33, G:0.04, T:0.59
Consensus pattern (26 bp):
TCCTTCTTCCGTTCTTCATCTTCTCT
Found at i:3477467 original size:11 final size:11
Alignment explanation
Indices: 3477453--3477477 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3477443 GCCTGCAATG
3477453 CAATAGCAAAC
1 CAATAGCAAAC
3477464 CAATAGCAAAC
1 CAATAGCAAAC
3477475 CAA
1 CAA
3477478 CATGCAGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.28, G:0.08, T:0.08
Consensus pattern (11 bp):
CAATAGCAAAC
Found at i:3478810 original size:31 final size:31
Alignment explanation
Indices: 3478772--3478832 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
3478762 AATAGATACC
* *
3478772 CAAATTATGA-AAATTTTCTCATTTAGGTACT
1 CAAATTAT-ACAAACTTTCTCATTTAAGTACT
*
3478803 CAAATTATACAACCTTTCTCATTTAAGTAC
1 CAAATTATACAAACTTTCTCATTTAAGTAC
3478833 CTAAATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (31 bp):
CAAATTATACAAACTTTCTCATTTAAGTACT
Found at i:3488674 original size:17 final size:17
Alignment explanation
Indices: 3488642--3488675 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3488632 ATTAAATCTA
**
3488642 TAAATATGATTTTATTT
1 TAAATATGATAATATTT
3488659 TAAATATGATAATATTT
1 TAAATATGATAATATTT
3488676 ATTTTATTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
TAAATATGATAATATTT
Found at i:3489920 original size:88 final size:87
Alignment explanation
Indices: 3489766--3489944 Score: 331
Period size: 88 Copynumber: 2.0 Consensus size: 87
3489756 TCTCCGCTGT
3489766 ATGCAAGTTACGACTAAGAAACAAAGTTTTCATTGCATAATGAACTCCGGCCTAGTCCCTTCTCG
1 ATGCAAGTTACGACTAAGAAACAAAGTTTTCATTGCATAATGAACTCCGGCCTAGTCCCTTCTCG
3489831 AACTCTTACAATTCCTAAGTTAC
66 AACTCTTACAATTCCTAAG-TAC
* *
3489854 ATGCAAGTTACGACTAAGAAACAAAGTTTTCATTGCATAATGAACTCTGGCCTAGTCCCTTTTCG
1 ATGCAAGTTACGACTAAGAAACAAAGTTTTCATTGCATAATGAACTCCGGCCTAGTCCCTTCTCG
3489919 AACTCTTACAATTCCTAAGTAC
66 AACTCTTACAATTCCTAAGTAC
3489941 ATGC
1 ATGC
3489945 TGTCGAAACC
Statistics
Matches: 89, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
87 7 0.08
88 82 0.92
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (87 bp):
ATGCAAGTTACGACTAAGAAACAAAGTTTTCATTGCATAATGAACTCCGGCCTAGTCCCTTCTCG
AACTCTTACAATTCCTAAGTAC
Found at i:3493244 original size:18 final size:18
Alignment explanation
Indices: 3493221--3493263 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
3493211 GATATCTAGA
3493221 TTTTTATAATAT-TTATTG
1 TTTTTAT-ATATCTTATTG
* *
3493239 TTTTTATTTATCTTTTTG
1 TTTTTATATATCTTATTG
3493257 TTTTTAT
1 TTTTTAT
3493264 TCGGGCCGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTTTATATATCTTATTG
Found at i:3498733 original size:50 final size:47
Alignment explanation
Indices: 3498484--3498799 Score: 188
Period size: 46 Copynumber: 6.7 Consensus size: 47
3498474 TGTGTGAATT
* * * **
3498484 AGTGTAAGACACGTTTGGGACAT-GCATCGGCTA-TATTTTG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCTAGGA-GATGCA-AGCC
* * * * *
3498530 AGTGTAAGACCATGCCTGGGACATGGCATCGGC-ATTGAGACG-AGTGTC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCTA-GGAGATGCA-AGCC
* * * * *
3498578 AGTGTAAAATATGTCTGGGACAT-GCATCGGCCTCGG-GACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG-CTAGGAGATGCAAGCC
*
3498624 AGTGTAAGACATGTCTGGGACAT-GCATCGGCTATGAGATGC--GCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCTAGGAGATGCAAGCC
* *
3498668 AGTGTAAGACCATGTCTGGGACATGGCATCGG-TACGGATATGCGAAAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCTA-GGAGATGC--AAGCC
* * ** * *
3498718 AGTGTAAGACTATGTCTGGGACATGGCATTGGCCTCGTTGATG-ATAACT
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCGG-CTAGGAGATGCA-AGCC
* *
3498767 AGTGTAAGACCTTGTATGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC
3498800 ACACTTACCC
Statistics
Matches: 216, Mismatches: 34, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
44 12 0.06
45 19 0.09
46 66 0.31
47 27 0.12
48 23 0.11
49 32 0.15
50 32 0.15
51 4 0.02
52 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCTAGGAGATGCAAGCC
Found at i:3508971 original size:25 final size:27
Alignment explanation
Indices: 3508939--3508989 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 27
3508929 ATATAATACT
3508939 ATTTATTTTAAATTTT-TT-TATATTC
1 ATTTATTTTAAATTTTCTTGTATATTC
*
3508964 ATTTATTTTAAGTTTTCTTGTATATT
1 ATTTATTTTAAATTTTCTTGTATATT
3508990 GTTTATTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.65
26 2 0.09
27 6 0.26
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (27 bp):
ATTTATTTTAAATTTTCTTGTATATTC
Found at i:3509088 original size:18 final size:17
Alignment explanation
Indices: 3509065--3509098 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
3509055 TAGATTGTTG
3509065 TATATATAT-TTATATT
1 TATATATATATTATATT
3509081 TATATATATATTATATT
1 TATATATATATTATATT
3509098 T
1 T
3509099 TATTGTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATATATATTATATT
Found at i:3520617 original size:104 final size:105
Alignment explanation
Indices: 3520436--3520627 Score: 271
Period size: 104 Copynumber: 1.8 Consensus size: 105
3520426 TTTGTATTCT
*
3520436 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAGCAAATTTTCATCTT
1 AGCAAAATTTGCTATCTTG---AATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTTCATCTT
*
3520501 ATCCGTTGTGATAATCTTTTTCATCTTATTCCTCTCGTATCTC
63 ATCCATTGTGATAATCTTTTTCATCTTATTCCTCTCGTATCTC
** * *
3520544 AGCAAAATTTGCTATCTTG-ATTTGTTTGTTTAGAGCTTTGCTCTCAACAAAATTTT-ATTTTGT
1 AGCAAAATTTGCTATCTTGAATTTGTTCATTTAGAGCTTTGCTCTCAAC-AAATTTTCATCTTAT
*
3520607 CCATTTTGATAATCTTTTTCA
65 CCATTGTGATAATCTTTTTCA
3520628 AGCATTTTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
104 50 0.66
105 7 0.09
108 19 0.25
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.47
Consensus pattern (105 bp):
AGCAAAATTTGCTATCTTGAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTTCATCTTATC
CATTGTGATAATCTTTTTCATCTTATTCCTCTCGTATCTC
Found at i:3521239 original size:132 final size:132
Alignment explanation
Indices: 3521002--3522023 Score: 1855
Period size: 132 Copynumber: 7.7 Consensus size: 132
3520992 AGGCGTAAAT
* * * *
3521002 AGGTCCTATCTTCCTATATTGGTAGAAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGG
1 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATATTGG
* *
3521067 TGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGGTA
66 TGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
3521132 GC
131 GC
*
3521134 AGGTCCTATCTTCCTATGTTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATATTGG
1 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATATTGG
*
3521199 TGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTA
66 TGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
3521264 GC
131 GC
*
3521266 AGGTCCTATGTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATATTGG
1 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATATTGG
3521331 TGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
66 TGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
3521396 GC
131 GC
3521398 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATATTGG
1 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATATTGG
* *
3521463 TGGCGAAGTAGATCACAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
66 TGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
3521528 GC
131 GC
*
3521530 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAAATCTTGTCTTCCCATATTGG
1 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATATTGG
*
3521595 TGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGATA
66 TGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
*
3521660 GT
131 GC
*
3521662 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATACTGG
1 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATATTGG
3521727 TGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
66 TGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
3521792 GC
131 GC
*
3521794 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATACTGG
1 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATATTGG
*
3521859 TGGCGAAGTAGATCACAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
66 TGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
3521924 GC
131 GC
* *
3521926 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCTCATACTGG
1 AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATATTGG
* *
3521991 TGGTGAAGTAGATCGAAGAAAGCAGATCTTGTC
66 TGGCGAAGTAGATCGCAGAAAGCAGATCTTGTC
3522024 CCTGTATTTG
Statistics
Matches: 864, Mismatches: 26, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 864 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (132 bp):
AGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATATTGG
TGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA
GC
Found at i:3522111 original size:40 final size:40
Alignment explanation
Indices: 3522061--3522252 Score: 217
Period size: 40 Copynumber: 4.8 Consensus size: 40
3522051 AGATTACAGA
* * *
3522061 TCTTATCTCCCTAAGCAATAGTGGAGTAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCACCAAG
* *
3522101 TCTTATCTCCCTAAGCAGTAGCGGAG-AGGA-CGAAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCA-GATCG-CACCA-AG
* * *
3522142 ATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCACCAAG
* * *
3522183 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACACCCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCACCAAG
**
3522223 TCTTATCTCCCTAAATAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
3522253 CTAAAAACAC
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 3 0.02
40 92 0.71
41 4 0.03
42 29 0.22
43 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCACCAAG
Found at i:3522153 original size:82 final size:82
Alignment explanation
Indices: 3522056--3522250 Score: 254
Period size: 82 Copynumber: 2.4 Consensus size: 82
3522046 ATTGAAGATT
* *
3522056 ACAGATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
1 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCAAATCGCATCAAGTCTTATCTCCCTAAGCAGTA
3522121 GCGGAG-AGGA-CGAAACC
66 GCGGAGCA-GATC-AAACC
* * *
3522138 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTGCATCAAGTCTTATCTCCCTAAGTAGTA
1 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCAAATCGCATCAAGTCTTATCTCCCTAAGCAGTA
* *
3522203 GTGGAGCAGATCACACC
66 GCGGAGCAGATCAAACC
** *
3522220 -CAG-TCTTATCTCCCTAAATAGTAGTGGAGCA
1 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
3522251 GACTAAAAAC
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
80 26 0.25
81 3 0.03
82 71 0.70
83 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (82 bp):
ACAGATCTTATCTCCCTAAGCAATAGTGGAGCAAATCGCATCAAGTCTTATCTCCCTAAGCAGTA
GCGGAGCAGATCAAACC
Found at i:3523865 original size:24 final size:23
Alignment explanation
Indices: 3523829--3523873 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
3523819 TATATATATA
3523829 ATATTATTTATTTTAAATTTTTT
1 ATATTATTTATTTTAAATTTTTT
*
3523852 ATATTAATTTATTTTAAGTTTT
1 ATATT-ATTTATTTTAAATTTT
3523874 CTTGTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
ATATTATTTATTTTAAATTTTTT
Found at i:3523873 original size:23 final size:23
Alignment explanation
Indices: 3523829--3523873 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3523819 TATATATATA
*
3523829 ATATTATTTATTTTAAATTTTTT
1 ATATTATTTATTTTAAAGTTTTT
3523852 ATATTAATTTATTTT-AAGTTTT
1 ATATT-ATTTATTTTAAAGTTTT
3523874 CTTGTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
ATATTATTTATTTTAAAGTTTTT
Found at i:3528725 original size:53 final size:53
Alignment explanation
Indices: 3528645--3528750 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
3528635 ACCGACAAAA
*
3528645 ATCATCTGAGCTCAAGATAGATAATGCAGACACCAAACATATAAAAAGGCAAC
1 ATCATCTGAGCTCAAGATAGATAATGCAGACACCAAACATATAAAAAGACAAC
3528698 ATCATCTGAGCTCAAGATAGATAATGCAGACACCAAACATATAAAAAGACAAC
1 ATCATCTGAGCTCAAGATAGATAATGCAGACACCAAACATATAAAAAGACAAC
3528751 CAGGTCGTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (53 bp):
ATCATCTGAGCTCAAGATAGATAATGCAGACACCAAACATATAAAAAGACAAC
Found at i:3535044 original size:20 final size:20
Alignment explanation
Indices: 3535019--3535068 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
3535009 TGGCTTAAAA
3535019 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
3535039 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
3535056 GTGGTAGTGGATT
1 TTGGTAGTGGATT
3535069 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:3539683 original size:20 final size:20
Alignment explanation
Indices: 3539658--3539707 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
3539648 TGGCTTAAAA
3539658 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
3539678 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
3539695 GTGGTAGTGGATT
1 TTGGTAGTGGATT
3539708 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:3540581 original size:226 final size:226
Alignment explanation
Indices: 3540104--3540780 Score: 1149
Period size: 226 Copynumber: 3.0 Consensus size: 226
3540094 ACAGAATTAA
* * * *
3540104 TGTAAGGTTGCTTATATTAGGCATGATTAAATTAATTAGAGAAGATCACAGTCTAATCAACACAA
1 TGTAAGGTTGCTTATATTTGGCATGATTATATTAATTAGAGAAGATCACAGTGTAATCAACTCAA
*
3540169 TAATACAAAAACATTGAGAAGAAAGGCACATGTATTTATTTTCTCCAGATATCTTCTTAATTATC
66 TAATACAAAAA-ATTGAGAAGAAAGGCACATGTATTTATTTTCTCCAGAGATCTTC-T--TT-TC
*
3540234 ACTTTATGCATGAAATATATGTAATTTGCTAATTATGGATAGAA-TTGAGAAGAATATTGCCTTC
126 ACTTTATGCATGAAATATATGTAATTTGCTAATTATGGATAGAATTTGAGAAGAATATTGCCTTG
*
3540298 TTTAGTTTACTGGTGCTATATTAAAACTACTAAGAG
191 TTTAGTTTACTGGTGCTTTATTAAAACTACTAAGAG
*
3540334 TGTAAGGTTGCTTATATTTGGCATGATTATATTAATTAGAGAAGATCACAGTGTAATCAATTCAA
1 TGTAAGGTTGCTTATATTTGGCATGATTATATTAATTAGAGAAGATCACAGTGTAATCAACTCAA
3540399 TAATACAAAAAATTGAGAAGAAAGGCACATGTATTTATTTTCTCCAGAGATCTTCTTTTCACTTT
66 TAATACAAAAAATTGAGAAGAAAGGCACATGTATTTATTTTCTCCAGAGATCTTCTTTTCACTTT
3540464 ATGCATGAAATATATGTAATTTGCTAATTATGGATAGAATTTGAGAAGAATATTGCCTTGTTTAG
131 ATGCATGAAATATATGTAATTTGCTAATTATGGATAGAATTTGAGAAGAATATTGCCTTGTTTAG
*
3540529 TTTACTGGGGCTTTATTAAAACTACTAAGAG
196 TTTACTGGTGCTTTATTAAAACTACTAAGAG
* *
3540560 TGTAAGGTTGGTTATATTTGGCATGATTATATTAATTAGAGAAGATCACAGCGTAATCAACTCAA
1 TGTAAGGTTGCTTATATTTGGCATGATTATATTAATTAGAGAAGATCACAGTGTAATCAACTCAA
* * *
3540625 TAATACAAAAAATTCAGAAGAAAGGCACATGTATTTATTTTCTCGCCAGTGATCTTCTTATCACT
66 TAATACAAAAAATTGAGAAGAAAGGCACATGTATTTATTTTCT--CCAGAGATCTTCTTTTCACT
3540690 TTATGCATGAAATATATGTAATTTGCTAATTATGGATAGAATTTGAGAAGAATATTGCCTTGTTT
129 TTATGCATGAAATATATGTAATTTGCTAATTATGGATAGAATTTGAGAAGAATATTGCCTTGTTT
*
3540755 AGTTTACTGGTGCTTTGTTAAAACTA
194 AGTTTACTGGTGCTTTATTAAAACTA
3540781 TGAAGTTAGT
Statistics
Matches: 427, Mismatches: 17, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
225 46 0.11
226 159 0.37
228 108 0.25
229 43 0.10
230 71 0.17
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (226 bp):
TGTAAGGTTGCTTATATTTGGCATGATTATATTAATTAGAGAAGATCACAGTGTAATCAACTCAA
TAATACAAAAAATTGAGAAGAAAGGCACATGTATTTATTTTCTCCAGAGATCTTCTTTTCACTTT
ATGCATGAAATATATGTAATTTGCTAATTATGGATAGAATTTGAGAAGAATATTGCCTTGTTTAG
TTTACTGGTGCTTTATTAAAACTACTAAGAG
Found at i:3540846 original size:31 final size:31
Alignment explanation
Indices: 3540808--3540866 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
3540798 ATGTGCATAT
*
3540808 ATTTGATTATCAATCTTTTAAAATGAGTCAA
1 ATTTGATTATCAACCTTTTAAAATGAGTCAA
3540839 ATTTGATTATCAACCTTTTAAAATGAGT
1 ATTTGATTATCAACCTTTTAAAATGAGT
3540867 TGAATTGCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.42
Consensus pattern (31 bp):
ATTTGATTATCAACCTTTTAAAATGAGTCAA
Found at i:3544726 original size:15 final size:15
Alignment explanation
Indices: 3544708--3544740 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
3544698 ATAAAAAATG
*
3544708 TAAGTTTAAATGCGT
1 TAAGTTTAAATACGT
3544723 TAAGTTTAAATACGT
1 TAAGTTTAAATACGT
3544738 TAA
1 TAA
3544741 AATGCACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.39
Consensus pattern (15 bp):
TAAGTTTAAATACGT
Found at i:3552794 original size:42 final size:42
Alignment explanation
Indices: 3552730--3552809 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
3552720 ATCAATTTTT
3552730 GAAAATAGCAAAATTTAATGGAACTAAAATTTTAAAAGTCCA
1 GAAAATAGCAAAATTTAATGGAACTAAAATTTTAAAAGTCCA
*
3552772 GAAAATAGCAAAATTTAGTGGAACTAAAATTTTAAAAG
1 GAAAATAGCAAAATTTAATGGAACTAAAATTTTAAAAG
3552810 CGTATGGACT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (42 bp):
GAAAATAGCAAAATTTAATGGAACTAAAATTTTAAAAGTCCA
Found at i:3555285 original size:33 final size:33
Alignment explanation
Indices: 3555219--3555285 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 33
3555209 ATAAATACTT
*
3555219 ATTTTTTTTATTTTTCAATAAAACGAAAACATGA
1 ATTTTTTCTATTTTTCAATAAAAC-AAAACATGA
* *
3555253 ATTTATTTCTATTTTTCTATAATAC-AAACATGA
1 ATTT-TTTCTATTTTTCAATAAAACAAAACATGA
3555286 GAAAAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 8 0.28
34 4 0.14
35 17 0.59
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.46
Consensus pattern (33 bp):
ATTTTTTCTATTTTTCAATAAAACAAAACATGA
Found at i:3555432 original size:20 final size:20
Alignment explanation
Indices: 3555407--3555456 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
3555397 TGGCTTAAAA
3555407 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
3555427 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
3555444 GTGGTAGTGGATT
1 TTGGTAGTGGATT
3555457 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:3560063 original size:20 final size:20
Alignment explanation
Indices: 3560038--3560087 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
3560028 TGGCTTAAAA
3560038 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
3560058 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
3560075 GTGGTAGTGGATT
1 TTGGTAGTGGATT
3560088 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Done.