Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011965.1 Kokia drynarioides strain JFW-HI SEQ_126963, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4800
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.29
Warning! 110 characters in sequence are not A, C, G, or T
Found at i:1036 original size:59 final size:58
Alignment explanation
Indices: 962--1270 Score: 374
Period size: 59 Copynumber: 5.3 Consensus size: 58
952 CGGAGTGGTA
* **
962 GGATTTTTGGAAGTTCGAGGGTAAAATGATAATTTTTAGAAGACCCGAGGTAAAAAATG
1 GGATTTTTGGAAGTTCGAGGGTAAAATGATAATTTTTGGAAGATTCGAGGT-AAAAATG
* * * *
1021 GGATTTTTGGGAGTTCGAGGGTAAAATGGTAATTTTTGGAAGGTTCGGGGCTAAAAATG
1 GGATTTTTGGAAGTTCGAGGGTAAAATGATAATTTTTGGAAGATTCGAGG-TAAAAATG
* * *
1080 GGATTTTTGGGAGTTCGGGGGTAAAAT-AGTAATTTTTGGAAGATT-TAGGGTTAAAAATG
1 GGATTTTTGGAAGTTCGAGGGTAAAATGA-TAATTTTTGGAAGATTCGA-GG-TAAAAATG
* * *
1139 GGATTTTTGGAAGTTC-AGGGGTAAAATGGTAATTTTTAGAAGGTTCGAGGCTAAAAATG
1 GGATTTTTGGAAGTTCGA-GGGTAAAATGATAATTTTTGGAAGATTCGAGG-TAAAAATG
* * *
1198 GGATTTTTGGAAGTTTG-TGGTAAAATAATAATTTTTGGAAGATTCGAGGTCAAAAATG
1 GGATTTTTGGAAGTTCGAGGGTAAAATGATAATTTTTGGAAGATTCGAGGT-AAAAATG
1256 GGATTTTTGGAAGTT
1 GGATTTTTGGAAGTT
1271 NNNNNNNNNN
Statistics
Matches: 216, Mismatches: 26, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
57 1 0.00
58 49 0.23
59 164 0.76
60 2 0.01
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (58 bp):
GGATTTTTGGAAGTTCGAGGGTAAAATGATAATTTTTGGAAGATTCGAGGTAAAAATG
Found at i:1044 original size:30 final size:29
Alignment explanation
Indices: 962--1270 Score: 228
Period size: 30 Copynumber: 10.5 Consensus size: 29
952 CGGAGTGGTA
962 GGATTTTTGGAAGTTCGAGGGT-AAAATG
1 GGATTTTTGGAAGTTCGAGGGTAAAAATG
** * **
990 ATAATTTTTAGAAGACCCGA-GGTAAAAAATG
1 -GGATTTTTGGAAG-TTCGAGGGT-AAAAATG
*
1021 GGATTTTTGGGAGTTCGAGGGT-AAAATG
1 GGATTTTTGGAAGTTCGAGGGTAAAAATG
*
1049 GTAATTTTTGGAAGGTTCG-GGGCTAAAAATG
1 G-GATTTTTGGAA-GTTCGAGGG-TAAAAATG
* *
1080 GGATTTTTGGGAGTTCGGGGGT-AAAATAG
1 GGATTTTTGGAAGTTCGAGGGTAAAAAT-G
** *
1109 TAATTTTTGGAAGATT-TAGGGTTAAAAATG
1 GGATTTTTGGAAG-TTCGAGGG-TAAAAATG
1139 GGATTTTTGGAAGTTC-AGGGGT-AAAATG
1 GGATTTTTGGAAGTTCGA-GGGTAAAAATG
* * *
1167 GTAATTTTTAGAAGGTTCGAGGCTAAAAATG
1 G-GATTTTTGGAA-GTTCGAGGGTAAAAATG
* *
1198 GGATTTTTGGAAGTTTG-TGGTAAAATAAT-
1 GGATTTTTGGAAGTTCGAGGGT-AAA-AATG
*
1227 -AATTTTTGGAAGATTCGA-GGTCAAAAATG
1 GGATTTTTGGAAG-TTCGAGGGT-AAAAATG
1256 GGATTTTTGGAAGTT
1 GGATTTTTGGAAGTT
1271 NNNNNNNNNN
Statistics
Matches: 221, Mismatches: 34, Indels: 50
0.72 0.11 0.16
Matches are distributed among these distances:
28 35 0.16
29 79 0.36
30 81 0.37
31 26 0.12
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (29 bp):
GGATTTTTGGAAGTTCGAGGGTAAAAATG
Found at i:1170 original size:118 final size:118
Alignment explanation
Indices: 962--1270 Score: 437
Period size: 118 Copynumber: 2.6 Consensus size: 118
952 CGGAGTGGTA
* * **
962 GGATTTTTGGAAGTTCGAGGGTAAAAT-GATAATTTTTAGAAGACCCGAGGTAAAAAATGGGATT
1 GGATTTTTGGAAGTTCGGGGGTAAAATAG-TAATTTTTGGAAGATTCGAGGTAAAAAATGGGATT
* * *
1026 TTTGGGAGTTCGAGGGTAAAATGGTAATTTTTGGAAGGTTCGGGGCTAAAAATG
65 TTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAGGTTCGAGGCTAAAAATG
* * *
1080 GGATTTTTGGGAGTTCGGGGGTAAAATAGTAATTTTTGGAAGATT-TAGGGTTAAAAATGGGATT
1 GGATTTTTGGAAGTTCGGGGGTAAAATAGTAATTTTTGGAAGATTCGA-GGTAAAAAATGGGATT
1144 TTTGGAAGTTC-AGGGGTAAAATGGTAATTTTTAGAAGGTTCGAGGCTAAAAATG
65 TTTGGAAGTTCGA-GGGTAAAATGGTAATTTTTAGAAGGTTCGAGGCTAAAAATG
* * * *
1198 GGATTTTTGGAAGTT-TGTGGTAAAATAATAATTTTTGGAAGATTCGAGGTCAAAAATGGGATTT
1 GGATTTTTGGAAGTTCGGGGGTAAAATAGTAATTTTTGGAAGATTCGAGGTAAAAAATGGGATTT
1262 TTGGAAGTT
66 TTGGAAGTT
1271 NNNNNNNNNN
Statistics
Matches: 171, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
117 53 0.31
118 117 0.68
119 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (118 bp):
GGATTTTTGGAAGTTCGGGGGTAAAATAGTAATTTTTGGAAGATTCGAGGTAAAAAATGGGATTT
TTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAGGTTCGAGGCTAAAAATG
Found at i:1410 original size:30 final size:28
Alignment explanation
Indices: 1336--1533 Score: 138
Period size: 30 Copynumber: 6.8 Consensus size: 28
1326 GATTTAGGGT
*
1336 TAAAAATGGGATTTTTGGAAGTT-TATGG
1 TAAAAATGGGATTTTTGGAAGTTCGA-GG
*
1364 TAAAATAAT--AATTTTTGGAAGATTCGAGG
1 T-AAA-AATGGGATTTTTGGAAG-TTCGAGG
*
1393 TCAAAAATGGGATTTTTGGAAGTTCGGGGG
1 T-AAAAATGGGATTTTTGGAAGTTC-GAGG
* * *
1423 T-AAAATGGTAATTTTTAGAAGGTTCTAGG
1 TAAAAATGG-GATTTTTGGAA-GTTCGAGG
* *
1452 CTAAAAATGAGATTTTTGGAAGTTCGGGGG
1 -TAAAAATGGGATTTTTGGAAGTTC-GAGG
**
1482 T-AAAATAGTAATTTTTGGAAGATTC-AGGG
1 TAAAAAT-GGGATTTTTGGAAG-TTCGA-GG
1511 TTAAAAATGGGATTTTTGGAAGT
1 -TAAAAATGGGATTTTTGGAAGT
1534 NNNNNNNNNN
Statistics
Matches: 134, Mismatches: 19, Indels: 33
0.72 0.10 0.18
Matches are distributed among these distances:
28 27 0.20
29 45 0.34
30 51 0.38
31 11 0.08
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.35
Consensus pattern (28 bp):
TAAAAATGGGATTTTTGGAAGTTCGAGG
Found at i:1458 original size:59 final size:57
Alignment explanation
Indices: 1321--1533 Score: 266
Period size: 59 Copynumber: 3.6 Consensus size: 57
1311 NNNNNNNNNN
* *** *
1321 TGGAAGATTTAGGGTTAAAAATGGGATTTTTGGAAGTT-TATGGTAAAATAATAATTTT
1 TGGAAGATTCA-GG-TAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATAGTAATTTT
*
1379 TGGAAGATTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTT
1 TGGAAGATTC-AGGT-AAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATAGTAATTTT
* * *
1438 TAGAAGGTTCTAGGCTAAAAATGAGATTTTTGGAAGTTCGGGGGTAAAATAGTAATTTT
1 TGGAAGATTC-AGG-TAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATAGTAATTTT
1497 TGGAAGATTCAGGGTTAAAAATGGGATTTTTGGAAGT
1 TGGAAGATTCA-GG-TAAAAATGGGATTTTTGGAAGT
1534 NNNNNNNNNN
Statistics
Matches: 135, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
57 1 0.01
58 34 0.25
59 99 0.73
60 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.35
Consensus pattern (57 bp):
TGGAAGATTCAGGTAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATAGTAATTTT
Found at i:1697 original size:30 final size:30
Alignment explanation
Indices: 1618--1710 Score: 104
Period size: 29 Copynumber: 3.2 Consensus size: 30
1608 GGTTCGAGCC
1618 TAAAAATGGGATTTTTGGAA-ATTCAGGGG
1 TAAAAATGGGATTTTTGGAAGATTCAGGGG
* * *
1647 T-AAAATGGTAATTCTTGGAAGATT-TGGGG
1 TAAAAATGG-GATTTTTGGAAGATTCAGGGG
*
1676 TCAAAAATGGGATTTTTGGAAG-TTCGGGGG
1 T-AAAAATGGGATTTTTGGAAGATTCAGGGG
1706 TAAAA
1 TAAAA
1711 GGGTAATTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
28 7 0.13
29 21 0.40
30 18 0.34
31 7 0.13
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.31
Consensus pattern (30 bp):
TAAAAATGGGATTTTTGGAAGATTCAGGGG
Found at i:1719 original size:29 final size:29
Alignment explanation
Indices: 1585--1725 Score: 87
Period size: 30 Copynumber: 4.8 Consensus size: 29
1575 NNNNNNNNNA
* * *
1585 GGGTAAAATGGTAATTTTTAGAAGGTTCGA
1 GGGTAAAAGGGTAATTTTTGGAA-GTTCGG
** * *
1615 GCCTAAAAATGGG--ATTTTTGGAAATTCAG
1 GGGT-AAAA-GGGTAATTTTTGGAAGTTCGG
* * *
1644 GGGTAAAATGGTAATTCTTGGAAGATT-TG
1 GGGTAAAAGGGTAATTTTTGGAAG-TTCGG
1673 GGGTCAAAAATGGG--ATTTTTGGAAGTTCGG
1 GGGT--AAAA-GGGTAATTTTTGGAAGTTCGG
1703 GGGTAAAAGGGTAA-TTTTGGAAG
1 GGGTAAAAGGGTAATTTTTGGAAG
1726 GTTTAGGGAC
Statistics
Matches: 84, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
27 5 0.06
28 17 0.20
29 22 0.26
30 28 0.33
31 8 0.10
32 4 0.05
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.31
Consensus pattern (29 bp):
GGGTAAAAGGGTAATTTTTGGAAGTTCGG
Found at i:2358 original size:30 final size:28
Alignment explanation
Indices: 2275--2492 Score: 186
Period size: 29 Copynumber: 7.4 Consensus size: 28
2265 TCTTGTCATG
* * * *
2275 ATTTTTGGAAGTTTGGGGGTAGAATAGTA
1 ATTTTTGGAAG-TTCGGGGTAAAATGGGA
2304 ATTTTTGGAAGATTCGGGGTTAAAAATGGGA
1 ATTTTTGGAAG-TTCGGGG-T-AAAATGGGA
* * *
2335 TTTTTTGGAAGTACGGAGGTAAAATGGTA
1 ATTTTTGGAAGTTCGG-GGTAAAATGGGA
* *
2364 ATTTTTAGAATGTTCGAGGCTAAAAATGGG-
1 ATTTTTGGAA-GTTCG-GGGT-AAAATGGGA
*
2394 ATTTTTGGAAGTTCAGGGGTAAAATGGTA
1 ATTTTTGGAAGTTC-GGGGTAAAATGGGA
* * * *
2423 ATTCTTGGAAGATTCGGAGTCAAAAAGGGG
1 ATTTTTGGAAG-TTCGGGGT-AAAATGGGA
*
2453 ATTTTTGGAAGTTCAGGGGTAAAATGGTA
1 ATTTTTGGAAGTTC-GGGGTAAAATGGGA
2482 ATTTTTGGAAG
1 ATTTTTGGAAG
2493 GTTTAGGGAC
Statistics
Matches: 152, Mismatches: 26, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
28 7 0.05
29 74 0.49
30 45 0.30
31 26 0.17
ACGTcount: A:0.31, C:0.04, G:0.31, T:0.33
Consensus pattern (28 bp):
ATTTTTGGAAGTTCGGGGTAAAATGGGA
Found at i:2366 original size:60 final size:59
Alignment explanation
Indices: 2274--2492 Score: 289
Period size: 59 Copynumber: 3.7 Consensus size: 59
2264 CTCTTGTCAT
** * *
2274 GATTTTTGGAAGTTTGGGGGTAGAATAGTAATTTTTGGAAGATTCGGGGTTAAAAATGG
1 GATTTTTGGAAGTTCAGGGGTAAAATGGTAATTTTTGGAAGATTCGGGGTTAAAAATGG
* * * *
2333 GATTTTTTGGAAGTAC-GGAGGTAAAATGGTAATTTTTAGAATG-TTCGAGGCTAAAAATGG
1 GA-TTTTTGGAAGTTCAGG-GGTAAAATGGTAATTTTTGGAA-GATTCGGGGTTAAAAATGG
* * * *
2393 GATTTTTGGAAGTTCAGGGGTAAAATGGTAATTCTTGGAAGATTCGGAGTCAAAAAGGG
1 GATTTTTGGAAGTTCAGGGGTAAAATGGTAATTTTTGGAAGATTCGGGGTTAAAAATGG
2452 GATTTTTGGAAGTTCAGGGGTAAAATGGTAATTTTTGGAAG
1 GATTTTTGGAAGTTCAGGGGTAAAATGGTAATTTTTGGAAG
2493 GTTTAGGGAC
Statistics
Matches: 139, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
58 1 0.01
59 88 0.63
60 49 0.35
61 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.32, T:0.33
Consensus pattern (59 bp):
GATTTTTGGAAGTTCAGGGGTAAAATGGTAATTTTTGGAAGATTCGGGGTTAAAAATGG
Found at i:3990 original size:784 final size:774
Alignment explanation
Indices: 2483--4041 Score: 3028
Period size: 784 Copynumber: 2.0 Consensus size: 774
2473 AAAATGGTAA
2483 TTTTTGGAAGGTTTAGGGACCTCCGGGGTAATAAAACCAAAGACGGGTGACACGTGGCAGCCCCT
1 TTTTTGGAAGGTTTAGGGACCTCCGGGGTAATAAAACCAAAGACGGGTGACACGTGGCAGCCCCT
2548 CAGGCATCCTGAAGTCAGAGGACTATATTGAAAATCGTAGAAAATTTATGGGGTAATTTTGAAAT
66 CAGGCATCCTGAAGTCAGAGGACTATATTGAAAATCGTAGAAAATTTATGGGGTAATTTTGAAAT
2613 TAAAGCGAACCTGATTTAAGGATCAAATTAGAACAAATTAGAAATAAAGGGGACCATTTGCGAAA
131 TAAAGCGAACCTGATTTAAGGATCAAATTAGAACAAATTAGAAATAAAGGGGACCATTTGCGAAA
2678 ATAAACCAAAATCATGACACGTGGCACCTCTTCGTGCTTTTGAAAGGTCAAGGGACTAAATTAAA
196 ATAAACCAAAATCATGACACGTGGCACCTCTTCGTGCTTTTGAAAGGTCAAGGGACTAAATTAAA
2743 AAAAAAAAATCGTTAGGCCAATTTAAAAGTAATTAAAAGCACGAGAAGGACCTGATTGAAAATTT
261 AAAAAAAAATCGTTAGGCCAATTTAAAAGTAATTAAAAGCACGAGAAGGACCTGATTGAAAATTT
2808 GGAAAAAAGCAGAATGACCAAATGCATAAATATACCATTAATCAAAAACACGCGGATCCTGAGTC
326 GGAAAAAAGCAGAATGACCAAATGCATAAATATACCATTAATCAAAAACACGCGGATCCTGAGTC
2873 GGGTCGAATCGGATCCGGGCCGGTTTTAGGTAAACTACGCCATTTTCATGCAGAATACCCTCACC
391 GGGTCGAATCGGATCCGGGCCGGTTTTAGGTAAACTACGCCATTTTCATGCAGAATACCCTCACC
2938 AAAACGTTGCCGTTTCAGTGAGGGTATTTAAAGCCTGAACCTTTTGAAAAAAAAAGGCCCTTCTT
456 AAAACGTTGCCGTTTCAGTGAGGGTATTTAAAGCCTGAACCTTTTGAAAAAAAAAGGCCCTTCTT
3003 TCATTTTCTCAGTTTTCAGAAAAAACGAAACCAGAGCCTCTCCCCTTTCCTCTCAAGTTCCCTCC
521 TCATTTTCTCAGTTTTCAGAAAAAACGAAACCAGAGCCTCTCCCCTTTCCTCTCAAGTTCCCTCC
3068 GTGGTCAGCCATGCTCCGATTGGTCGAGCTGGTCGGCGTTCGACGCGCGTAGGCCGCACGCGTAC
586 GTGGTCAGCCATGCTCCGATTGGTCGAGCTGGTCGGCGTTCGACGCGCGTAGGCCGCACGCGTAC
3133 CACCGACCCCCCCGCGCGTGGTCATTCGTGTTACCGCCGGGGATTTTCCGGTGCACGCGCCGTCT
651 CACCGACCCCCCCGCGCGTGGTCATTCGTGTTACCGCCGGGGATTTTCCGGTGCACGCGCCGTCT
3198 TTCCACGCGCCACGCGCCTCCTTTGAAGGTAAACCGTCATTTTTCCTGCCTTTCTTTTT
716 TTCCACGCGCCACGCGCCTCCTTTGAAGGTAAACCGTCATTTTTCCTGCCTTTCTTTTT
3257 TNNNNNNNNNNTTTTGGAAGGTTTAGGGACCTCCGGGGTAATAAAACCAAAGACGGGTGACACGT
1 T----------TTTTGGAAGGTTTAGGGACCTCCGGGGTAATAAAACCAAAGACGGGTGACACGT
3322 GGCAGCCCCTCAGGCATCCTGAAGTCAGAGGACTATATTGAAAATCGTAGAAAATTTATGGGGTA
56 GGCAGCCCCTCAGGCATCCTGAAGTCAGAGGACTATATTGAAAATCGTAGAAAATTTATGGGGTA
3387 ATTTTGAAATTAAAGCGAACCTGATTTAAGGATCAAATTAGAACAAATTAGAAATAAAGGGGACC
121 ATTTTGAAATTAAAGCGAACCTGATTTAAGGATCAAATTAGAACAAATTAGAAATAAAGGGGACC
3452 ATTTGCGAAAATAAACCAAAATCATGACACGTGGCACCTCTTCGTGCTTTTGAAAGGTCAAGGGA
186 ATTTGCGAAAATAAACCAAAATCATGACACGTGGCACCTCTTCGTGCTTTTGAAAGGTCAAGGGA
3517 CTAAATTAAAAAAAAAAAATCGTTAGGCCAATTTAAAAGTAATTAAAAGCACGAGAAGGACCTGA
251 CTAAATTAAAAAAAAAAAATCGTTAGGCCAATTTAAAAGTAATTAAAAGCACGAGAAGGACCTGA
3582 TTGAAAATTTGGAAAAAAGCAGAATGACCAAATGCATAAATATACCATTAATCAAAAACACGCGG
316 TTGAAAATTTGGAAAAAAGCAGAATGACCAAATGCATAAATATACCATTAATCAAAAACACGCGG
3647 ATCCTGAGTCGGGTCGAATCGGATCCGGGCCGGTTTTAGGTAAACTACGCCATTTTCATGCAGAA
381 ATCCTGAGTCGGGTCGAATCGGATCCGGGCCGGTTTTAGGTAAACTACGCCATTTTCATGCAGAA
3712 TACCCTCACCAAAACGTTGCCGTTTCAGTGAGGGTATTTAAAGCCTGAACCTTTTGAAAAAAAAA
446 TACCCTCACCAAAACGTTGCCGTTTCAGTGAGGGTATTTAAAGCCTGAACCTTTTGAAAAAAAAA
3777 GGCCCTTCTTTCATTTTCTCAGTTTTCAGAAAAAACGAAACCAGAGCCTCTCCCCTTTCCTCTCA
511 GGCCCTTCTTTCATTTTCTCAGTTTTCAGAAAAAACGAAACCAGAGCCTCTCCCCTTTCCTCTCA
3842 AGTTCCCTCCGTGGTCAGCCATGCTCCGATTGGTCGAGCTGGTCGGCGTTCGACGCGCGTAGGCC
576 AGTTCCCTCCGTGGTCAGCCATGCTCCGATTGGTCGAGCTGGTCGGCGTTCGACGCGCGTAGGCC
3907 GCACGCGTACCACCGACCCCCCCGCGCGTGGTCATTCGTGTTACCGCCGGGGATTTTCCGGTGCA
641 GCACGCGTACCACCGACCCCCCCGCGCGTGGTCATTCGTGTTACCGCCGGGGATTTTCCGGTGCA
3972 CGCGCCGTCTTTCCACGCGCCACGCGCCTCCTTTGAAGGTAAACCGTCATTTTTCCTGCCTTTCT
706 CGCGCCGTCTTTCCACGCGCCACGCGCCTCCTTTGAAGGTAAACCGTCATTTTTCCTGCCTTTCT
4037 TTTT
771 TTTT
4041 T
1 T
4042 ATTACACCCT
Statistics
Matches: 775, Mismatches: 0, Indels: 10
0.99 0.00 0.01
Matches are distributed among these distances:
774 1 0.00
784 774 1.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (774 bp):
TTTTTGGAAGGTTTAGGGACCTCCGGGGTAATAAAACCAAAGACGGGTGACACGTGGCAGCCCCT
CAGGCATCCTGAAGTCAGAGGACTATATTGAAAATCGTAGAAAATTTATGGGGTAATTTTGAAAT
TAAAGCGAACCTGATTTAAGGATCAAATTAGAACAAATTAGAAATAAAGGGGACCATTTGCGAAA
ATAAACCAAAATCATGACACGTGGCACCTCTTCGTGCTTTTGAAAGGTCAAGGGACTAAATTAAA
AAAAAAAAATCGTTAGGCCAATTTAAAAGTAATTAAAAGCACGAGAAGGACCTGATTGAAAATTT
GGAAAAAAGCAGAATGACCAAATGCATAAATATACCATTAATCAAAAACACGCGGATCCTGAGTC
GGGTCGAATCGGATCCGGGCCGGTTTTAGGTAAACTACGCCATTTTCATGCAGAATACCCTCACC
AAAACGTTGCCGTTTCAGTGAGGGTATTTAAAGCCTGAACCTTTTGAAAAAAAAAGGCCCTTCTT
TCATTTTCTCAGTTTTCAGAAAAAACGAAACCAGAGCCTCTCCCCTTTCCTCTCAAGTTCCCTCC
GTGGTCAGCCATGCTCCGATTGGTCGAGCTGGTCGGCGTTCGACGCGCGTAGGCCGCACGCGTAC
CACCGACCCCCCCGCGCGTGGTCATTCGTGTTACCGCCGGGGATTTTCCGGTGCACGCGCCGTCT
TTCCACGCGCCACGCGCCTCCTTTGAAGGTAAACCGTCATTTTTCCTGCCTTTCTTTTT
Found at i:4314 original size:3 final size:3
Alignment explanation
Indices: 4306--4338 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
4296 ATGCCCTTTT
4306 TTA TTA TTAA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TT
4339 GTTTTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4779 original size:6 final size:6
Alignment explanation
Indices: 4768--4800 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
4758 AAAGGTTTGA
4768 CGGTGG CGGTGG CGGTGG CGGTGG CGGTGG CGG
1 CGGTGG CGGTGG CGGTGG CGGTGG CGGTGG CGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.18, G:0.67, T:0.15
Consensus pattern (6 bp):
CGGTGG
Done.