Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold760
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: 35762
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Found at i:3104 original size:45 final size:44
Alignment explanation
Indices: 3037--3156 Score: 159
Period size: 45 Copynumber: 2.7 Consensus size: 44
3027 GATCAATACG
* * *
3037 ATGCCGATGTCCCAGACATGGTCTTACACATAACCACATATATCA
1 ATGCCAATGTCCCAGACGTGGTCTTACACA-AAACACATATATCA
**
3082 ATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACATATATTG
1 ATGCCAATGTCCCAGACGTGGTCTTACAC-AAAACACATATATCA
**
3127 ATGCCAACATCCCAGACGTGGTCTTACACA
1 ATGCCAATGTCCCAGACGTGGTCTTACACA
3157 CAAAAAACAT
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.01
45 65 0.97
46 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACAAAACACATATATCA
Found at i:7533 original size:19 final size:19
Alignment explanation
Indices: 7509--7546 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7499 CTTTACCTAT
7509 TACATAGTTTCCATGATTC
1 TACATAGTTTCCATGATTC
7528 TACATAGTTTCCATGATTC
1 TACATAGTTTCCATGATTC
7547 AACTAACCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (19 bp):
TACATAGTTTCCATGATTC
Found at i:8287 original size:40 final size:40
Alignment explanation
Indices: 8243--8427 Score: 232
Period size: 40 Copynumber: 4.7 Consensus size: 40
8233 ACTACTTGCT
*
8243 CAAATGCCTTCGGGACTT-GACCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGTTATAATAACTCGCA
* *
8283 CAAATGCCTTCGGGACTTAACCCGGTTACAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCA
*
8323 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCA
* * * * * *
8363 CAATTGGCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAATAACTCGCA
*
8402 CAAATGCCTTCAGGACTTAGCCCGGT
1 CAAATGCCTTCGGGACTTAGCCCGGT
8428 CATCATCCGA
Statistics
Matches: 126, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 30 0.24
40 95 0.75
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCA
Found at i:15957 original size:47 final size:47
Alignment explanation
Indices: 15905--16118 Score: 320
Period size: 47 Copynumber: 4.6 Consensus size: 47
15895 GATAATTGTG
* *
15905 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
15952 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
15999 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGCGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
16046 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
16093 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
16119 TCCTGAAGGG
Statistics
Matches: 151, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 151 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:18317 original size:38 final size:38
Alignment explanation
Indices: 18253--18327 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
18243 AATCTGAGTT
*
18253 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
18291 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
18328 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:18441 original size:40 final size:40
Alignment explanation
Indices: 18381--18688 Score: 456
Period size: 40 Copynumber: 7.7 Consensus size: 40
18371 AGGTCTCGAC
*
18381 GATG-ATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
18420 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
18460 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
18500 GATGTATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
18540 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
18580 GATGTATCCGGGCAAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
18620 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * *
18660 GTTATATCTGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
18689 ATCATGCTGG
Statistics
Matches: 244, Mismatches: 24, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
39 4 0.02
40 240 0.98
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:18603 original size:120 final size:120
Alignment explanation
Indices: 18381--18701 Score: 509
Period size: 120 Copynumber: 2.7 Consensus size: 120
18371 AGGTCTCGAC
18381 GATG-ATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
1 GATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
*
18445 AGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
66 AGCATTCATGCTAGTGATGTATCCGGGCAAAGTCCCGAAGAGCATTCATGCTAGT
*
18500 GATGTATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
1 GATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
* *
18565 AGCATTCATGCTAGTGATGTATCCGGGCAAAGTTCCGAAGAGCATTCGTGCTAGT
66 AGCATTCATGCTAGTGATGTATCCGGGCAAAGTCCCGAAGAGCATTCATGCTAGT
* * * * * * * *
18620 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCTGGGCTAGGTCCCGAAG
1 GATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
* *
18685 AGCAATCATGCTGGTGA
66 AGCATTCATGCTAGTGA
18702 CGTGTATTCG
Statistics
Matches: 186, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
119 4 0.02
120 182 0.98
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (120 bp):
GATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
AGCATTCATGCTAGTGATGTATCCGGGCAAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:22239 original size:47 final size:47
Alignment explanation
Indices: 22187--22351 Score: 280
Period size: 47 Copynumber: 3.6 Consensus size: 47
22177 GATAATTGTG
* *
22187 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
22234 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
22281 ATGTGAAAGTGTATATA--TGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
22326 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
22352 TCCGAAGGGC
Statistics
Matches: 111, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
45 43 0.39
47 68 0.61
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:22311 original size:45 final size:45
Alignment explanation
Indices: 22200--22340 Score: 246
Period size: 45 Copynumber: 3.1 Consensus size: 45
22190 TGAATGTATA
*
22200 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
22245 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATA--TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
22292 TATATATGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
22337 TATA
1 TATA
22341 AATGTGATAA
Statistics
Matches: 92, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
45 47 0.51
47 45 0.49
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (45 bp):
TATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:26990 original size:40 final size:40
Alignment explanation
Indices: 26946--27130 Score: 214
Period size: 40 Copynumber: 4.7 Consensus size: 40
26936 ACTACTTGCT
* *
26946 CAAATGCCTTCGGGACTT-GACCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGTAATAATAACTCGCA
* * *
26986 CAAATGCCTTCGGGACTTAACCCGGTTACAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTAATAATAACTCGCA
** *
27026 CAAATGCCTTCGGGACTTAGCCCGAAAATAATAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTAATAATAACTCGCA
* * * * *
27066 CAATTGTCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTAA-TAATAACTCGCA
27105 CAAATGCCTTCGGGACTTAGCCCGGT
1 CAAATGCCTTCGGGACTTAGCCCGGT
27131 CATCATCCGA
Statistics
Matches: 123, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.02
39 29 0.24
40 92 0.75
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTAATAATAACTCGCA
Found at i:29096 original size:6 final size:6
Alignment explanation
Indices: 29073--29188 Score: 67
Period size: 6 Copynumber: 18.8 Consensus size: 6
29063 TATCAAAACT
* * * *
29073 AGAATC AAAATG AGAATC AGAATC AGAATT AGGTGAT- AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
* * * * *
29122 AGAATC AGAATT AG-GTGAC AAAATT AGAATC AGAATC AGTATC AGGTAA-C
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC A-G-AATC
*
29172 AGAATC AAAATC AGAAT
1 AGAATC AGAATC AGAAT
29189 GTGAATGCAA
Statistics
Matches: 82, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
5 5 0.06
6 67 0.82
7 6 0.07
8 4 0.05
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:29123 original size:31 final size:31
Alignment explanation
Indices: 29085--29188 Score: 145
Period size: 31 Copynumber: 3.4 Consensus size: 31
29075 AATCAAAATG
*
29085 AGAATCAGAATCAGAATTAGGTGATAGAATC
1 AGAATCAGAATCAGAATTAGGTGACAGAATC
* *
29116 AGAATCAGAATCAGAATTAGGTGACAAAATT
1 AGAATCAGAATCAGAATTAGGTGACAGAATC
* * *
29147 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATTAGGTGACAGAATC
*
29178 AAAATCAGAAT
1 AGAATCAGAAT
29189 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATTAGGTGACAGAATC
Found at i:29355 original size:27 final size:28
Alignment explanation
Indices: 29325--29386 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 28
29315 GTGATGAAGT
*
29325 CACCAGATACAAATAT-TGTGGCTAGGC
1 CACCAGATACAAATATATGTGGCGAGGC
*
29352 CACCAGA-ACAGATATATGTGGCGAGGC
1 CACCAGATACAAATATATGTGGCGAGGC
29379 CACCAGAT
1 CACCAGAT
29387 TGCAGTGAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 7 0.23
27 24 0.77
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (28 bp):
CACCAGATACAAATATATGTGGCGAGGC
Found at i:30096 original size:27 final size:27
Alignment explanation
Indices: 29621--30083 Score: 515
Period size: 27 Copynumber: 17.2 Consensus size: 27
29611 AACACCCTAG
* * *
29621 GGGTAAAATGGTAATTTTATAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
29648 GGGTAAAATGGTAATTCTT-TAAATCGA
1 GGGTAAAATAGTAATT-TTGTAAATCGA
29675 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* ** * *
29702 GGCTAAAGCAATAATTTTATAAA-CGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
29728 GGGTAAAA-CGATAATTTTGTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
*
29755 GGGTAAAATAGTAATTTTTTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
** **
29782 GGGTAAAACGGTAATTTTGTAAATTAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
29809 GGGTAAAATAGTAATTCTATAAACCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
29836 GGGTAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
**
29863 GGGTAAAATAGTAATTTTGTAAATTAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
29890 GGGTAAAATAGTAATTCTGTAAGTCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
29917 GGGTAAAACAATAATTCTGTAAATC-A
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
29943 TGGGTAAAA-CGATAATTTTGTAAATCGA
1 -GGGTAAAATAG-TAATTTTGTAAATCGA
* * * * *
29971 AGGTAAAATGGTAATTCTATAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
29998 GGGTAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
**
30025 GGGTAAAACGGTAATTCTT-TAAATCGA
1 GGGTAAAATAGTAATT-TTGTAAATCGA
*
30052 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
30079 GGGTA
1 GGGTA
30084 CTTTGGTAAT
Statistics
Matches: 369, Mismatches: 56, Indels: 22
0.83 0.13 0.05
Matches are distributed among these distances:
26 25 0.07
27 337 0.91
28 7 0.02
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:30096 original size:81 final size:81
Alignment explanation
Indices: 29621--30083 Score: 572
Period size: 81 Copynumber: 5.7 Consensus size: 81
29611 AACACCCTAG
* * * * *
29621 GGGTAAAATGGTAATTTTATAAATTGAGGGTAAAATGGTAATTCTTTAAATCGAGGGTAAAATAG
1 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAG
*
29686 TAATTTTGTAAATCGA
66 TAATTTTGTAAATCAA
* * ** * * *
29702 GGCTAAAGCAATAATTTTATAAA-CGAGGGTAAAA-CGATAATTTTGTAAATCGAGGGTAAAATA
1 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAG-TAATTCTGTAAATCGAGGGTAAAATA
* *
29765 GTAATTTTTTAAATCGA
65 GTAATTTTGTAAATCAA
** * *
29782 GGGTAAAACGGTAATTTTGTAAATTAAGGGTAAAATAGTAATTCTATAAACCGAGGGTAAAATAG
1 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAG
29847 TAATTTTGTAAATCAA
66 TAATTTTGTAAATCAA
** ** * * *
29863 GGGTAAAATAGTAATTTTGTAAATTAAGGGTAAAATAGTAATTCTGTAAGTCGAGGGTAAAACAA
1 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAG
* *
29928 TAATTCTGTAAATCAT
66 TAATTTTGTAAATCAA
* * * * *
29944 GGGTAAAACGATAATTTTGTAAATCGAAGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATAG
1 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAG
30009 TAATTTTGTAAATCAA
66 TAATTTTGTAAATCAA
* *
30025 GGGTAAAACGGTAATTCTT-TAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTA
1 GGGTAAAACGGTAATT-TTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTA
30084 CTTTGGTAAT
Statistics
Matches: 325, Mismatches: 53, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
79 1 0.00
80 68 0.21
81 253 0.78
82 3 0.01
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (81 bp):
GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAG
TAATTTTGTAAATCAA
Found at i:30119 original size:27 final size:28
Alignment explanation
Indices: 30060--30122 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
30050 GAGGGTAAAA
**
30060 CAGTAATTTTGTAAATCGAGGGTACTTT
1 CAGTAATTTTACAAATCGAGGGTACTTT
* *
30088 -GGTAATTTTACAAGTCGAGGGTA-TTT
1 CAGTAATTTTACAAATCGAGGGTACTTT
30114 CAGTAATTT
1 CAGTAATTT
30123 GGTAAACTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.10
27 26 0.90
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.40
Consensus pattern (28 bp):
CAGTAATTTTACAAATCGAGGGTACTTT
Found at i:32215 original size:29 final size:29
Alignment explanation
Indices: 32181--32255 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
32171 ATAATGTTAC
* * *
32181 TTGGGCATGATGGGCCACGTAAATGTGAT
1 TTGGGCCTAATGGGCCACATAAATGTGAT
*
32210 TTGGGCCTAAAGGGCCACATAAATGTGAT
1 TTGGGCCTAATGGGCCACATAAATGTGAT
32239 TTGGGCCTAATGGGCCA
1 TTGGGCCTAATGGGCCA
32256 TATGAATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.25
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCACATAAATGTGAT
Found at i:33427 original size:17 final size:18
Alignment explanation
Indices: 33395--33430 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
33385 TTTTCAAGGA
33395 AAGGTTTCCAATGAAAAC
1 AAGGTTTCCAATGAAAAC
*
33413 AAGGTTTTC-ATGAAAAC
1 AAGGTTTCCAATGAAAAC
33430 A
1 A
33431 CTTCAATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (18 bp):
AAGGTTTCCAATGAAAAC
Done.