Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014388.1 Kokia drynarioides strain JFW-HI SEQ_129426, 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: 31837
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Warning! 10 characters in sequence are not A, C, G, or T
Found at i:193 original size:13 final size:13
Alignment explanation
Indices: 175--206 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
165 CAATATTTAC
175 TTTGTTCATTATA
1 TTTGTTCATTATA
188 TTTGTTCATTATA
1 TTTGTTCATTATA
201 TTTGTT
1 TTTGTT
207 AACACATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.19, C:0.06, G:0.09, T:0.66
Consensus pattern (13 bp):
TTTGTTCATTATA
Found at i:517 original size:17 final size:18
Alignment explanation
Indices: 495--550 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
485 ATCTCTTCAA
*
495 AAAAATATAAAAACTT-T
1 AAAAATATAAAAAATTAT
512 AAAAAT-TCAAAAAATTAT
1 AAAAATAT-AAAAAATTAT
*
530 AAAAATA-AAAAAAATAT
1 AAAAATATAAAAAATTAT
547 AAAA
1 AAAA
551 TGTGTTATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 1 0.03
17 26 0.76
18 7 0.21
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAATATAAAAAATTAT
Found at i:544 original size:27 final size:27
Alignment explanation
Indices: 490--542 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
480 AGTCAATCTC
**
490 TTCAAAAAAATATAAAAACTTTAAAAA
1 TTCAAAAAAATATAAAAACTAAAAAAA
*
517 TTCAAAAAATTATAAAAA-TAAAAAAA
1 TTCAAAAAAATATAAAAACTAAAAAAA
543 ATATAAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.25
Consensus pattern (27 bp):
TTCAAAAAAATATAAAAACTAAAAAAA
Found at i:2662 original size:12 final size:12
Alignment explanation
Indices: 2618--2662 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
2608 AATAAATAGC
2618 ATTAATAATAAT
1 ATTAATAATAAT
*
2630 GGTTAATAATAAT
1 -ATTAATAATAAT
2643 ATCT-ATAATAAT
1 AT-TAATAATAAT
2655 ATTAATAA
1 ATTAATAA
2663 CATTAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 1 0.04
12 15 0.54
13 12 0.43
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (12 bp):
ATTAATAATAAT
Found at i:3753 original size:59 final size:57
Alignment explanation
Indices: 3683--4212 Score: 505
Period size: 59 Copynumber: 9.1 Consensus size: 57
3673 TTTATCCCCG
* *
3683 AACTTCCAAAAATTCCATTTTTACCCTTGAACTTCCAAAAATTCCATTTTCAACCCTAA
1 AACTTCCAAAAATTCCATTTTTACCC-CGAACTTCCAAAAATTCCATTTT-GACCCTAA
* * ** * *
3742 AACTTTCAAAAATTCCATTTTCAACCCTAAAACTTTCAAAAATTCCATTATT-ACCCAAA
1 AACTTCCAAAAATTCCATTTT-TACCC-CGAACTTCCAAAAATTCCATT-TTGACCCTAA
* * * **
3801 AACTTCCAAAAATTCCATTTTTAACCCCAAAACTTCTAAAAATTCCATTTTTACCCTTG
1 AACTTCCAAAAATTCCATTTTT-ACCCC-GAACTTCCAAAAATTCCATTTTGACCCTAA
**
3860 AACTTCCAAAAATTCCATTTTTGACCCCGAAACTTCCAAAAATTCCATTTTCGA-CCTCG
1 AACTTCCAAAAATTCCATTTTT-ACCCCG-AACTTCCAAAAATTCCATTTT-GACCCTAA
* * ** *
3919 AACCTCC-AAAATTCCATTATTACCCCCGAACTTCCAAAAATTCCATTTTTGACATTGA
1 AACTTCCAAAAATTCCATTTTTA-CCCCGAACTTCCAAAAATTCCA-TTTTGACCCTAA
* * * *
3977 AACTTTCAAAAATTCCATTTTTACCCACGAACTTCCAAAAATTCCTTTTTTACCC-ACG
1 AACTTCCAAAAATTCCATTTTTACCC-CGAACTTCCAAAAATTCCATTTTGACCCTA-A
* *
4035 AACTTCCAAAAATTCTC-TTTTTGACCCCGAAACTTCCAAAAATTCCATTTTTGATCCTGA
1 AACTTCCAAAAATTC-CATTTTT-ACCCCG-AACTTCCAAAAATTCCA-TTTTGACCCTAA
* * * * *
4095 AACTTCCAAAAATTCCGTTTTTTCCCCGAACTTCCAAAAATTTCATTTTTACCCTCA
1 AACTTCCAAAAATTCCATTTTTACCCCGAACTTCCAAAAATTCCATTTTGACCCTAA
* ** * * *
4152 AACTTCGAAAAATGACATTTTGACCTCGAAACTTCCAAAAATTCCAATTTT-ACCCTCA
1 AACTTCCAAAAATTCCATTTTTACCCCG-AACTTCCAAAAATTCC-ATTTTGACCCTAA
4210 AAC
1 AAC
4213 CTCTAAAATA
Statistics
Matches: 397, Mismatches: 53, Indels: 43
0.81 0.11 0.09
Matches are distributed among these distances:
57 50 0.13
58 101 0.25
59 193 0.49
60 51 0.13
61 2 0.01
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (57 bp):
AACTTCCAAAAATTCCATTTTTACCCCGAACTTCCAAAAATTCCATTTTGACCCTAA
Found at i:4220 original size:29 final size:29
Alignment explanation
Indices: 3648--4212 Score: 529
Period size: 29 Copynumber: 19.3 Consensus size: 29
3638 CCCTGAAGGT
* **
3648 CCCTC-AACTGTCCGAAAATTTGATTTTTA
1 CCCTCAAACT-TCCAAAAATTCCATTTTTA
*
3677 TCCC-CGAACTTCCAAAAATTCCATTTTTA
1 -CCCTCAAACTTCCAAAAATTCCATTTTTA
** *
3706 CCCTTGAACTTCCAAAAATTCCATTTTCAA
1 CCCTCAAACTTCCAAAAATTCCATTTT-TA
* * *
3736 CCCTAAAACTTTCAAAAATTCCATTTTCAA
1 CCCTCAAACTTCCAAAAATTCCATTTT-TA
* * *
3766 CCCTAAAACTTTCAAAAATTCCATTATTA
1 CCCTCAAACTTCCAAAAATTCCATTTTTA
**
3795 CCCAAAAACTTCCAAAAATTCCATTTTTAA
1 CCCTCAAACTTCCAAAAATTCCATTTTT-A
*
3825 CCC-CAAAACTTCTAAAAATTCCATTTTTA
1 CCCTC-AAACTTCCAAAAATTCCATTTTTA
**
3854 CCCTTGAACTTCCAAAAATTCCATTTTTGA
1 CCCTCAAACTTCCAAAAATTCCATTTTT-A
*
3884 CCC-CGAAACTTCCAAAAATTCCATTTTCGA
1 CCCTC-AAACTTCCAAAAATTCCATTTT-TA
* * *
3914 -CCTCGAACCTCC-AAAATTCCATTATTA
1 CCCTCAAACTTCCAAAAATTCCATTTTTA
* *
3941 CCCCCGAACTTCCAAAAATTCCATTTTTGA
1 CCCTCAAACTTCCAAAAATTCCATTTTT-A
** * *
3971 CATTGAAACTTTCAAAAATTCCATTTTTA
1 CCCTCAAACTTCCAAAAATTCCATTTTTA
* * *
4000 CCCACGAACTTCCAAAAATTCCTTTTTTA
1 CCCTCAAACTTCCAAAAATTCCATTTTTA
* *
4029 CCCACGAACTTCCAAAAATTCTC-TTTTTGA
1 CCCTCAAACTTCCAAAAATTC-CATTTTT-A
4059 CCC-CGAAACTTCCAAAAATTCCATTTTTGA
1 CCCTC-AAACTTCCAAAAATTCCATTTTT-A
* * * *
4089 TCCTGAAACTTCCAAAAATTCCGTTTTTT
1 CCCTCAAACTTCCAAAAATTCCATTTTTA
* *
4118 CCC-CGAACTTCCAAAAATTTCATTTTTA
1 CCCTCAAACTTCCAAAAATTCCATTTTTA
* ** *
4146 CCCTCAAACTTCGAAAAATGACATTTTGA
1 CCCTCAAACTTCCAAAAATTCCATTTTTA
*
4175 -CCTCGAAACTTCCAAAAATTCCAATTTTA
1 CCCTC-AAACTTCCAAAAATTCCATTTTTA
4204 CCCTCAAAC
1 CCCTCAAAC
4213 CTCTAAAATA
Statistics
Matches: 452, Mismatches: 62, Indels: 43
0.81 0.11 0.08
Matches are distributed among these distances:
27 1 0.00
28 52 0.12
29 207 0.46
30 192 0.42
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.33
Consensus pattern (29 bp):
CCCTCAAACTTCCAAAAATTCCATTTTTA
Found at i:4238 original size:58 final size:57
Alignment explanation
Indices: 4123--4265 Score: 148
Period size: 58 Copynumber: 2.5 Consensus size: 57
4113 TTTTTCCCCG
* * * ** *
4123 AACTTCCAAAAATTTCATTTTTACCCTCAAACTTCGAAAAATGACATTTTGACCTCGA
1 AACTTCCAAAAATTCCAATTTTACCCTCAAACCTCGAAAAAT-ACATTTCAAACTCGA
*
4181 AACTTCCAAAAATTCCAATTTTACCCTCAAACCTC-TAAAATATCTATTTCAAACTCGA
1 AACTTCCAAAAATTCCAATTTTACCCTCAAACCTCGAAAAATA-C-ATTTCAAACTCGA
* *
4239 AAC-TCCCAAAATTACC-CTTTTACCCTC
1 AACTTCCAAAAATT-CCAATTTTACCCTC
4266 GAATATCTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
56 1 0.01
57 25 0.34
58 47 0.64
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.31
Consensus pattern (57 bp):
AACTTCCAAAAATTCCAATTTTACCCTCAAACCTCGAAAAATACATTTCAAACTCGA
Found at i:27496 original size:205 final size:205
Alignment explanation
Indices: 27144--28003 Score: 1249
Period size: 205 Copynumber: 4.2 Consensus size: 205
27134 AACGATACAA
27144 TCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCT
1 TCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCT
* *
27209 TCGAACCCTAGCTTCCTGATGAGACACCGAGAAGCAGGTTGAAGCAATAAAAGGTTAGCTTCCTG
66 TCGAACCCCAGCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCCTG
* **
27274 ATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGGTACAGAGAAGCGGATTGAAACA
131 ATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAGCGGACCGAAACA
27339 AACGACACGG
196 AACGACACGG
27349 TCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCT
1 TCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCT
*
27414 TCGAACCCCAGCTTCCTGATGAGACACCAAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCCTG
66 TCGAACCCCAGCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCCTG
* * *
27479 ATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGC-GAGCTGAAAC
131 ATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAGCGGA-CCGAAAC
*
27543 AAACGACGCGG
195 AAACGACACGG
*
27554 TCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTAAGCAAATCT
1 TCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCT
*
27619 TCGAACCCCAGCTTCTTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCCTG
66 TCGAACCCCAGCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCCTG
* * * *
27684 ATGAGATACTAAGAAGTGGACCAAATTCGTCTTTCTGATGAGATACAGAGAAGCGAACCGAAACA
131 ATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAGCGGACCGAAACA
* *
27749 AACGACGCGA
196 AACGACACGG
*
27759 TCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATATGAGCAAATCT
1 TCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCT
* ** * ** * * * *
27824 TTGAA-CCTTGTTTTTTGATGAGATACTGAGAAGCAGGTCGAAGTAA-AAATACAGTTAGCTTCC
66 TCGAACCCCAGCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAA-A-GGTTAGCTTCC
* * * * ** * * * * *
27887 TGATGAAATACGGGGAAGTGAACCAAAACCATCTTCCTGATGAAACACAGAGAAGTGGATCAAAA
129 TGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAGCGGACCGAAA
** * *
27952 CAAGTGATATGG
194 CAAACGACACGG
* * *
27964 TCGTCTTCCTGATGAGATACTGAGAAGAAGGCCAAGTCAA
1 TCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
28004 TGAAACCGGA
Statistics
Matches: 599, Mismatches: 52, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
203 3 0.01
204 37 0.06
205 558 0.93
206 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (205 bp):
TCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCT
TCGAACCCCAGCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCCTG
ATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAGCGGACCGAAACA
AACGACACGG
Found at i:27942 original size:37 final size:37
Alignment explanation
Indices: 27882--27952 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
27872 ATACAGTTAG
* * *
27882 CTTCCTGATGAAATACGGGGAAGTGAACCAAAACCAT
1 CTTCCTGATGAAACACAGAGAAGTGAACCAAAACCAT
* *
27919 CTTCCTGATGAAACACAGAGAAGTGGATCAAAAC
1 CTTCCTGATGAAACACAGAGAAGTGAACCAAAAC
27953 AAGTGATATG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (37 bp):
CTTCCTGATGAAACACAGAGAAGTGAACCAAAACCAT
Found at i:28342 original size:6 final size:6
Alignment explanation
Indices: 28328--28391 Score: 55
Period size: 6 Copynumber: 11.0 Consensus size: 6
28318 TTTAATTTAT
* *
28328 TTTAAA TTTAGA TTT-AT TTTAAA TTTAAA -TT-AA TCTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA
*
28374 TTT-AA TTTCAAA ATTAAA
1 TTTAAA TTT-AAA TTTAAA
28392 AGTCCACAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
4 2 0.04
5 10 0.21
6 28 0.60
7 7 0.15
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:28344 original size:17 final size:17
Alignment explanation
Indices: 28321--28391 Score: 88
Period size: 17 Copynumber: 4.1 Consensus size: 17
28311 CCCTTTTTTT
28321 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
*
28338 GATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
* *
28355 AATTAATCTTAAATTTA
1 AATTTATTTTAAATTTA
* *
28372 AATTTAATTTCAAAATTA
1 AATTT-ATTTTAAATTTA
28390 AA
1 AA
28392 AGTCCACAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
17 34 0.76
18 11 0.24
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:28360 original size:11 final size:12
Alignment explanation
Indices: 28328--28391 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 12
28318 TTTAATTTAT
*
28328 TTTAAATTTAGA
1 TTTAAATTTAAA
*
28340 TTT-ATTTTAAA
1 TTTAAATTTAAA
28351 TTTAAA-TT-AA
1 TTTAAATTTAAA
28361 TCTTAAATTTAAA
1 T-TTAAATTTAAA
28374 TTT-AATTTCAAA
1 TTTAAATTT-AAA
*
28386 ATTAAA
1 TTTAAA
28392 AGTCCACAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
10 3 0.07
11 21 0.50
12 13 0.31
13 5 0.12
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:29180 original size:21 final size:21
Alignment explanation
Indices: 29156--29204 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
29146 AACTGCCTCA
29156 TTAATAATAATATTAATTACT
1 TTAATAATAATATTAATTACT
*
29177 TTAATAATAATATTAATTATT
1 TTAATAATAATATTAATTACT
29198 TTAATAA
1 TTAATAA
29205 AAAAGAAACG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATAATAATATTAATTACT
Found at i:29424 original size:15 final size:15
Alignment explanation
Indices: 29404--29433 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29394 GAACGACTTT
29404 AAAATAAAAAAAAAG
1 AAAATAAAAAAAAAG
*
29419 AAAATAAAAAGAAAG
1 AAAATAAAAAAAAAG
29434 GTTTTTTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (15 bp):
AAAATAAAAAAAAAG
Found at i:30532 original size:30 final size:30
Alignment explanation
Indices: 30179--30566 Score: 408
Period size: 29 Copynumber: 13.2 Consensus size: 30
30169 GAAGGTCCCT
* *
30179 AAACTGTCCGAAAATTCCATTTTTACCC-CT
1 AAACT-TCCAAAAATTCCATTTTTACCCTCG
* *
30209 AAAATTCCAAAAATTCCATTTTTACCC-CC
1 AAACTTCCAAAAATTCCATTTTTACCCTCG
** *
30238 AAACTTATAAAAATTCCATTTTTAACCTCG
1 AAACTTCCAAAAATTCCATTTTTACCCTCG
* * *
30268 AAACTTCCAAAAATTCCATTTTTAACATCA
1 AAACTTCCAAAAATTCCATTTTTACCCTCG
* *
30298 AAACTTTCAAAAATTCCATTATTACCCTCG
1 AAACTTCCAAAAATTCCATTTTTACCCTCG
* *
30328 -AACTTCCAAAAATTCCAATTTTGACCC-CA
1 AAACTTCCAAAAATTCC-ATTTTTACCCTCG
*
30357 AAACTTCCAAAAATTCCATTTTTGACCCT-T
1 AAACTTCCAAAAATTCCATTTTT-ACCCTCG
*
30387 AAACTTCC-AAAATTCCATTTTTGACCCT-A
1 AAACTTCCAAAAATTCCATTTTT-ACCCTCG
*
30416 AAACTTCCAAAAATTCCATTTTAACCCTCG
1 AAACTTCCAAAAATTCCATTTTTACCCTCG
* *
30446 -AACTTCCAAAAATTCCA-TTTTAGCTTCG
1 AAACTTCCAAAAATTCCATTTTTACCCTCG
* *
30474 -AACTTCCAAAAATGCCGTTTTTGA-CCTCG
1 AAACTTCCAAAAATTCCATTTTT-ACCCTCG
30503 AAACTTCCAAAAATTCCATTTTTACCCTCG
1 AAACTTCCAAAAATTCCATTTTTACCCTCG
* *
30533 -AACCTCC-AAAATCTCCATTTTCGA-CCTCG
1 AAACTTCCAAAAAT-TCCATTTT-TACCCTCG
30562 AAACT
1 AAACT
30567 CTCAAAATTA
Statistics
Matches: 307, Mismatches: 37, Indels: 28
0.83 0.10 0.08
Matches are distributed among these distances:
28 28 0.09
29 144 0.47
30 135 0.44
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.32
Consensus pattern (30 bp):
AAACTTCCAAAAATTCCATTTTTACCCTCG
Found at i:30573 original size:59 final size:59
Alignment explanation
Indices: 30175--30566 Score: 410
Period size: 59 Copynumber: 6.7 Consensus size: 59
30165 CCCTGAAGGT
* * * *
30175 CCCT-AAACTGTCCGAAAATTCCATTTTT-ACCCCTAAAATTCCAAAAATTCCATTTTTA
1 CCCTCAAACT-TCCAAAAATTCCATTTTTGACCTCGAAACTTCCAAAAATTCCATTTTTA
* ** *
30233 CCCCCAAACTTATAAAAATTCCATTTTTAACCTCGAAACTTCCAAAAATTCCATTTTTA
1 CCCTCAAACTTCCAAAAATTCCATTTTTGACCTCGAAACTTCCAAAAATTCCATTTTTA
* * * * *
30292 ACATCAAAACTTTCAAAAATTCCATTATT-ACCCTCG-AACTTCCAAAAATTCCAATTTTGA
1 CCCTC-AAACTTCCAAAAATTCCATTTTTGA-CCTCGAAACTTCCAAAAATTCC-ATTTTTA
*
30352 CCC-CAAAACTTCCAAAAATTCCATTTTTGACC-CTTAAACTTCC-AAAATTCCATTTTTGA
1 CCCTC-AAACTTCCAAAAATTCCATTTTTGACCTC-GAAACTTCCAAAAATTCCATTTTT-A
* *
30411 CCCTAAAACTTCCAAAAATTCCA-TTTTAACCCTCG-AACTTCCAAAAATTCCA-TTTTA
1 CCCTCAAACTTCCAAAAATTCCATTTTTGA-CCTCGAAACTTCCAAAAATTCCATTTTTA
* * * * *
30468 GCTTCGAACTTCCAAAAATGCCGTTTTTGACCTCGAAACTTCCAAAAATTCCATTTTTA
1 CCCTCAAACTTCCAAAAATTCCATTTTTGACCTCGAAACTTCCAAAAATTCCATTTTTA
* * *
30527 CCCTCGAACCTCC-AAAATCTCCATTTTCGACCTCGAAACT
1 CCCTCAAACTTCCAAAAAT-TCCATTTTTGACCTCGAAACT
30567 CTCAAAATTA
Statistics
Matches: 281, Mismatches: 36, Indels: 33
0.80 0.10 0.09
Matches are distributed among these distances:
57 23 0.08
58 67 0.24
59 150 0.53
60 41 0.15
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.32
Consensus pattern (59 bp):
CCCTCAAACTTCCAAAAATTCCATTTTTGACCTCGAAACTTCCAAAAATTCCATTTTTA
Done.