Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015203.1 Kokia drynarioides strain JFW-HI SEQ_130247, 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: 10079
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.31
Warning! 202 characters in sequence are not A, C, G, or T
Found at i:4813 original size:13 final size:13
Alignment explanation
Indices: 4777--4827 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
4767 TTAATGCCAT
*
4777 TAATAATTAATAGA
1 TAAT-ATTAATAAA
* *
4791 TATTAGTAATAAA
1 TAATATTAATAAA
4804 TAATATTAATAAA
1 TAATATTAATAAA
*
4817 AAATATTAATA
1 TAATATTAATA
4828 TTAAATAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
13 28 0.90
14 3 0.10
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (13 bp):
TAATATTAATAAA
Found at i:4821 original size:20 final size:20
Alignment explanation
Indices: 4802--4839 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4792 ATTAGTAATA
4802 AATAATATT-AATAAAAAAT
1 AATAATATTAAATAAAAAAT
*
4821 ATTAATATTAAATAAAAAA
1 AATAATATTAAATAAAAAA
4840 AGGAAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AATAATATTAAATAAAAAAT
Found at i:5987 original size:29 final size:29
Alignment explanation
Indices: 5931--6545 Score: 415
Period size: 29 Copynumber: 20.9 Consensus size: 29
5921 TCTACCCCCG
* * *
5931 AACTTCCAAAAATCCCATTTTCGACCCTAA
1 AACTTCCAAAAATTCCATTTT-TACCCTGA
*
5961 AATTTCCAAAAATTCCATTTTTACCCTTG-
1 AACTTCCAAAAATTCCATTTTTACCC-TGA
* * *
5990 AACTTCCAAAAATCCCATTTTCAACCAC-AA
1 AACTTCCAAAAATTCCATTTT-TACC-CTGA
*
6020 AACTTCCAAAAATTCCATTTTTACCCCCG-
1 AACTTCCAAAAATTCCATTTTTA-CCCTGA
* *
6049 AACTTCCAAAAGTCCCATTTTTTA-CCTCGA
1 AACTTCCAAAAATTCCA-TTTTTACCCT-GA
*
6079 AACTTGCAAAAATTACCA-TTTTACCCTCG-
1 AACTTCCAAAAATT-CCATTTTTACCCT-GA
*
6108 AACTTCC-AAAAGTCCTATTTTTTA-CCTCGA
1 AACTTCCAAAAATTCC-A-TTTTTACCCT-GA
**
6138 AACTTCCAAAAATTACCA-TTTTACCCCCA
1 AACTTCCAAAAATT-CCATTTTTACCCTGA
* *
6167 AACTTCC-AAAAGTCCTATTTTTTACCCCGA
1 AACTTCCAAAAATTCC-A-TTTTTACCCTGA
* *
6197 AACTACCAAAAATTACCA-TTTTACCCTCA
1 AACTTCCAAAAATT-CCATTTTTACCCTGA
* * * *
6226 AACTTCCAAAAGTCCCATTTTAACCCCGA
1 AACTTCCAAAAATTCCATTTTTACCCTGA
* **
6255 AACTTCCAAAAATTACCA-TTTTGCCCCCA
1 AACTTCCAAAAATT-CCATTTTTACCCTGA
* * **
6284 AACTTCCAAAAGTCCCATTTTTAACCCCAA
1 AACTTCCAAAAATTCCATTTTT-ACCCTGA
* *
6314 AACTTCCAAAAAGTACCA-TTTTACCCCCG-
1 AACTTCCAAAAA-TTCCATTTTTA-CCCTGA
** *
6343 AACTTTTAAAAATCCCATCTTTTATCCC-GA
1 AACTTCCAAAAATTCCAT-TTTTA-CCCTGA
* * * *
6373 AGCTTCCAAAAAATCCTTTTTTACCCCT-T
1 AACTTCCAAAAATTCCATTTTTA-CCCTGA
*
6402 AACTTCTAAAAA-TCCATTTTTTGACCCTGA
1 AACTTCCAAAAATTCCA-TTTTT-ACCCTGA
* * *
6432 AATTTCC-AAAATTCCATTTTTAACCTTAA
1 AACTTCCAAAAATTCCATTTTT-ACCCTGA
* *
6461 AACTTCTAAAAATTCCATTTTTAGCCTG-
1 AACTTCCAAAAATTCCATTTTTACCCTGA
* *
6489 AACTTCCCAAAATTCCATTTTTGACTCTGA
1 AACTTCCAAAAATTCCATTTTT-ACCCTGA
*
6519 AACTTCCTAAAATTACCA-TTTTACCCT
1 AACTTCCAAAAATT-CCATTTTTACCCT
6546 CGGATGGCCA
Statistics
Matches: 466, Mismatches: 78, Indels: 83
0.74 0.12 0.13
Matches are distributed among these distances:
27 4 0.01
28 47 0.10
29 203 0.44
30 185 0.40
31 23 0.05
32 4 0.01
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (29 bp):
AACTTCCAAAAATTCCATTTTTACCCTGA
Found at i:5998 original size:59 final size:58
Alignment explanation
Indices: 5906--6509 Score: 519
Period size: 59 Copynumber: 10.3 Consensus size: 58
5896 CCGTAAACGG
* * ** * *
5906 TCCAAAGATT-CAGTTTCTACCCCCGAACTTCCAAAAATCCCATTTTCGACCCTAAAATT
1 TCCAAAAATTCCA-TTT-TACCCTCGAACTTCCAAAAATCCCATTTTTTACCCTGAAACT
* ** *
5965 TCCAAAAATTCCATTTTTACCCTTGAACTTCCAAAAATCCCATTTTCAACCAC-AAAACT
1 TCCAAAAATTCCA-TTTTACCCTCGAACTTCCAAAAATCCCATTTTTTACC-CTGAAACT
* *
6024 TCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAGTCCCATTTTTTA-CCTCGAAACT
1 TCCAAAAATTCCA-TTTTACCCTCGAACTTCCAAAAATCCCATTTTTTACCCT-GAAACT
* * *
6083 TGCAAAAATTACCATTTTACCCTCGAACTTCCAAAAGTCCTATTTTTTA-CCTCGAAACT
1 TCCAAAAATT-CCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTTACCCT-GAAACT
* * * * *
6142 TCCAAAAATTACCATTTTACCCCCAAACTTCCAAAAGTCCTATTTTTTACCCCGAAACT
1 TCCAAAAATT-CCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTTACCCTGAAACT
* * * * *
6201 ACCAAAAATTACCATTTTACCCTCAAACTTCCAAAAGTCCCA-TTTTAACCCCGAAACT
1 TCCAAAAATT-CCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTTACCCTGAAACT
* * * * * **
6259 TCCAAAAATTACCATTTTGCCCCCAAACTTCCAAAAGTCCCATTTTTAACCCCAAAACT
1 TCCAAAAATT-CCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTTACCCTGAAACT
* * ** * *
6318 TCCAAAAAGTACCATTTTACCCCCGAACTTTTAAAAATCCCATCTTTTATCCC-GAAGCT
1 TCCAAAAA-TTCCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTTA-CCCTGAAACT
* * * * *
6377 TCCAAAAAATCCTTTTTTACCC-CTTAACTTCTAAAAAT-CCATTTTTTGACCCTGAAATT
1 TCCAAAAATTCC-ATTTTACCCTC-GAACTTCCAAAAATCCCATTTTTT-ACCCTGAAACT
* ** * * *
6436 TCC-AAAATTCCATTTTTAACCTTAAAACTTCTAAAAATTCCA-TTTTTAGCCTG-AACT
1 TCCAAAAATTCCA-TTTT-ACCCTCGAACTTCCAAAAATCCCATTTTTTACCCTGAAACT
*
6493 TCCCAAAATTCCATTTT
1 TCCAAAAATTCCATTTT
6510 TGACTCTGAA
Statistics
Matches: 475, Mismatches: 52, Indels: 38
0.84 0.09 0.07
Matches are distributed among these distances:
57 11 0.02
58 94 0.20
59 352 0.74
60 18 0.04
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (58 bp):
TCCAAAAATTCCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTTACCCTGAAACT
Found at i:6114 original size:118 final size:117
Alignment explanation
Indices: 5906--6510 Score: 616
Period size: 118 Copynumber: 5.2 Consensus size: 117
5896 CCGTAAACGG
* * * * ** * *
5906 TCCAAAGATT-CAGTTTCTACCCCCGAACTTCCAAAAATCCCATTTTCGACCCTAAAATTTCCAA
1 TCCAAAAATTCCA-TTTTTACCCCCAAACTTCCAAAAGTCCCATTTTTTACCCCAAAACTTCCAA
* * *
5970 AAATT-CCATTTTTACCCTTGAACTTCCAAAAATCCCATTTTCAACCACAAAACT
65 AAATTACCA-TTTTACCCTCGAACTTCCAAAAATCCCATTTTTAACC-CGAAACT
* * * *
6024 TCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAGTCCCATTTTTTACCTCGAAACTTGCAAA
1 TCCAAAAATTCCATTTTTACCCCCAAACTTCCAAAAGTCCCATTTTTTACCCCAAAACTTCCAAA
* * *
6089 AATTACCATTTTACCCTCGAACTTCCAAAAGTCCTATTTTTTACCTCGAAACT
66 AATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTAACC-CGAAACT
* * *
6142 TCCAAAAATTACCA-TTTTACCCCCAAACTTCCAAAAGTCCTATTTTTTACCCCGAAACTACCAA
1 TCCAAAAATT-CCATTTTTACCCCCAAACTTCCAAAAGTCCCATTTTTTACCCCAAAACTTCCAA
* *
6206 AAATTACCATTTTACCCTCAAACTTCCAAAAGTCCCA-TTTTAACCCCGAAACT
65 AAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTAA-CCCGAAACT
* *
6259 TCCAAAAATTACCA-TTTTGCCCCCAAACTTCCAAAAGTCCCATTTTTAACCCCAAAACTTCCAA
1 TCCAAAAATT-CCATTTTTACCCCCAAACTTCCAAAAGTCCCATTTTTTACCCCAAAACTTCCAA
* * ** * *
6323 AAAGTACCATTTTACCCCCGAACTTTTAAAAATCCCATCTTTTATCCCGAAGCT
65 AAATTACCATTTTACCCTCGAACTTCCAAAAATCCCAT-TTTTAACCCGAAACT
* * ** * * ** *
6377 TCCAAAAAATCCTTTTTTACCCCTTAACTTCTAAAAAT-CCATTTTTTGACCCTGAAATTTCC-A
1 TCCAAAAATTCCATTTTTACCCCCAAACTTCCAAAAGTCCCATTTTTT-ACCCCAAAACTTCCAA
* ** * * * *
6440 AAATT-CCATTTTTAACCTTAAAACTTCTAAAAATTCCATTTTTAGCCTG-AACT
65 AAATTACCA-TTTT-ACCCTCGAACTTCCAAAAATCCCATTTTTAACCCGAAACT
*
6493 TCCCAAAATTCCATTTTT
1 TCCAAAAATTCCATTTTT
6511 GACTCTGAAA
Statistics
Matches: 415, Mismatches: 62, Indels: 22
0.83 0.12 0.04
Matches are distributed among these distances:
116 21 0.05
117 129 0.31
118 252 0.61
119 13 0.03
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (117 bp):
TCCAAAAATTCCATTTTTACCCCCAAACTTCCAAAAGTCCCATTTTTTACCCCAAAACTTCCAAA
AATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTAACCCGAAACT
Found at i:6615 original size:29 final size:29
Alignment explanation
Indices: 6583--6641 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
6573 CCGAATTTTC
6583 CCAAAATTATC-GTTTTGCCCCTCGAGAAT
1 CCAAAATTATCAGTTTTGCCCC-CGAGAAT
*
6612 CCAAAATTATCATTTTTGCCCCCGAGAAT
1 CCAAAATTATCAGTTTTGCCCCCGAGAAT
6641 C
1 C
6642 TGAAAAGTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (29 bp):
CCAAAATTATCAGTTTTGCCCCCGAGAAT
Found at i:6658 original size:29 final size:30
Alignment explanation
Indices: 6595--6657 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
6585 AAAATTATCG
*
6595 TTTTGCCCCTCGAGAATCCAAAATTATCAT
1 TTTTGCCCCTCGAGAATCCAAAAGTATCAT
* *
6625 TTTTGCCCC-CGAGAATCTGAAAAGTCTCAT
1 TTTTGCCCCTCGAGAATC-CAAAAGTATCAT
6655 TTT
1 TTT
6658 GAACTCCGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (30 bp):
TTTTGCCCCTCGAGAATCCAAAAGTATCAT
Found at i:7652 original size:13 final size:13
Alignment explanation
Indices: 7616--7666 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
7606 TTAATGCCAT
*
7616 TAATAATTAATAGA
1 TAAT-ATTAATAAA
* *
7630 TATTAGTAATAAA
1 TAATATTAATAAA
7643 TAATATTAATAAA
1 TAATATTAATAAA
7656 -AATTATTAATA
1 TAA-TATTAATA
7667 TTAAATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 2 0.06
13 26 0.84
14 3 0.10
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (13 bp):
TAATATTAATAAA
Found at i:7660 original size:26 final size:27
Alignment explanation
Indices: 7616--7666 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
7606 TTAATGCCAT
* *
7616 TAATAATTAATAGATATTAGTAATAAA
1 TAATAATTAATAAAAATTAGTAATAAA
*
7643 TAAT-ATTAATAAAAATTATTAATA
1 TAATAATTAATAAAAATTAGTAATA
7667 TTAAATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (27 bp):
TAATAATTAATAAAAATTAGTAATAAA
Found at i:8796 original size:29 final size:28
Alignment explanation
Indices: 8764--9265 Score: 339
Period size: 29 Copynumber: 17.1 Consensus size: 28
8754 CCGTTTCTAC
* *
8764 CCCCGAACTTCCAAAAATCCCATTTTCGA
1 CCCCAAACTTCCAAAAATCCCATTTT-TA
* *
8793 CCCCAAAATTTCCAAAAATTCCATTTTTA
1 CCCC-AAACTTCCAAAAATCCCATTTTTA
*
8822 CCCTCAAACTTCCAAAAATCCCATTTTCGA
1 CCC-CAAACTTCCAAAAATCCCATTTT-TA
* * *
8852 CCCCAAAACTTCTAAAAATTCCAATTTTA
1 CCCC-AAACTTCCAAAAATCCCATTTTTA
*
8881 CCCCTAAACTTCCAAAAGTCCCATTTTTTA
1 CCCC-AAACTTCCAAAAATCCCA-TTTTTA
* *
8911 CCCTAAAACTTCCAAAAATTACCA-TTTTA
1 CCC-CAAACTTCCAAAAA-TCCCATTTTTA
*
8940 CCCCCAAACTTCCAAAAATCCCATTTTAA
1 -CCCCAAACTTCCAAAAATCCCATTTTTA
* * *
8969 CCCCAAAACTTCTAAAATTACCA-TTTTA
1 CCCC-AAACTTCCAAAAATCCCATTTTTA
*
8997 CCCCTAAACTTCTAAAAATCCCATTTTTAA
1 CCCC-AAACTTCCAAAAATCCCATTTTT-A
** *
9027 CCTTGAAACTTCCAAAAAGTACCA-TTTTA
1 CC-CCAAACTTCCAAAAA-TCCCATTTTTA
* *
9056 CCCCCGAACTTCTAAAAATCCCATCTTTTA
1 -CCCCAAACTTCCAAAAATCCCAT-TTTTA
* * ** *
9086 TCCCGAAGCTTCCAAAAAAACCTTTTTTA
1 -CCCCAAACTTCCAAAAATCCCATTTTTA
* *
9115 CCCCTTAACTTCTAAAAATCCCATTTTTTGA
1 CCCC-AAACTTCCAAAAATCCCA-TTTTT-A
* * * *
9146 CCCTAGAATTTCC-AAAATTCCATTTTAA
1 CCCCA-AACTTCCAAAAATCCCATTTTTA
** * *
9174 CCATGAAACTTCTAAAAATTCCATTTTTA
1 CC-CCAAACTTCCAAAAATCCCATTTTTA
** * *
9203 GCCCTGAACTTCCTAAAATTCCATTTTTGA
1 -CCCCAAACTTCCAAAAATCCCATTTTT-A
* * *
9233 CTCCGAAACTTCCTAAAATTACCA-TTTTA
1 C-CCCAAACTTCC-AAAAATCCCATTTTTA
9262 CCCC
1 CCCC
9266 TGGATGTCCA
Statistics
Matches: 371, Mismatches: 75, Indels: 55
0.74 0.15 0.11
Matches are distributed among these distances:
28 49 0.13
29 161 0.43
30 137 0.37
31 24 0.06
ACGTcount: A:0.35, C:0.30, G:0.03, T:0.32
Consensus pattern (28 bp):
CCCCAAACTTCCAAAAATCCCATTTTTA
Found at i:8836 original size:59 final size:58
Alignment explanation
Indices: 8738--9260 Score: 432
Period size: 59 Copynumber: 8.9 Consensus size: 58
8728 GAAGGTCCCT
* * * * *
8738 AAACTATCCAAAGATTCCGTTTCTACCCCCGAACTTCCAAAAATCCCATTTTCGACCCCA
1 AAACT-TCCAAAAATTCCATTTTTA-CCCCAAACTTCCAAAAATCCCATTTTTGACCCCA
* *
8798 AAATTTCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATCCCATTTTCGACCCCA
1 AAACTTCCAAAAATTCCATTTTTACCC-CAAACTTCCAAAAATCCCATTTTTGACCCCA
* * * * *
8857 AAACTTCTAAAAATTCCAATTTTACCCCTAAACTTCCAAAAGTCCCATTTTTTACCCTA
1 AAACTTCCAAAAATTCCATTTTTACCCC-AAACTTCCAAAAATCCCATTTTTGACCCCA
*
8916 AAACTTCCAAAAATTACCA-TTTTACCCCCAAACTTCCAAAAATCCCA-TTTTAACCCCA
1 AAACTTCCAAAAATT-CCATTTTTA-CCCCAAACTTCCAAAAATCCCATTTTTGACCCCA
* * * ***
8974 AAACTT-CTAAAATTACCA-TTTTACCCCTAAACTTCTAAAAATCCCATTTTTAACCTTG
1 AAACTTCCAAAAATT-CCATTTTTACCCC-AAACTTCCAAAAATCCCATTTTTGACCCCA
* * * * *
9032 AAACTTCCAAAAAGTACCA-TTTTACCCCCGAACTTCTAAAAATCCCATCTTTT-ATCCCG
1 AAACTTCCAAAAA-TTCCATTTTTA-CCCCAAACTTCCAAAAATCCCAT-TTTTGACCCCA
* ** * * * *
9091 AAGCTTCCAAAAAAACCTTTTTTACCCCTTAACTTCTAAAAATCCCATTTTTTGACCCTA
1 AAACTTCCAAAAATTCCATTTTTACCCC-AAACTTCCAAAAATCCCA-TTTTTGACCCCA
* * * ** * * * *
9151 GAATTTCC-AAAATTCCATTTTAACCATGAAACTTCTAAAAATTCCATTTTT-AGCCCT
1 AAACTTCCAAAAATTCCATTTTTACC-CCAAACTTCCAAAAATCCCATTTTTGACCCCA
* * * * *
9208 GAACTTCCTAAAATTCCATTTTTGACTCCGAAACTTCCTAAAATTACCATTTT
1 AAACTTCCAAAAATTCCATTTTT-AC-CCCAAACTTCC-AAAAATCCCATTTT
9261 ACCCCTGGAT
Statistics
Matches: 390, Mismatches: 54, Indels: 38
0.81 0.11 0.08
Matches are distributed among these distances:
56 4 0.01
57 43 0.11
58 58 0.15
59 243 0.62
60 42 0.11
ACGTcount: A:0.35, C:0.30, G:0.03, T:0.32
Consensus pattern (58 bp):
AAACTTCCAAAAATTCCATTTTTACCCCAAACTTCCAAAAATCCCATTTTTGACCCCA
Found at i:9261 original size:59 final size:59
Alignment explanation
Indices: 9002--9289 Score: 163
Period size: 59 Copynumber: 4.9 Consensus size: 59
8992 TTTTACCCCT
* * * *
9002 AAACTTCTAAAAATCCCATTTTTAACCTTGAAACT-TCCAAAAAGTACCA-TTTT-ACCCCCG
1 AAACTTCTAAAAATTCCATTTTTACCCCTG-AA-TGTCCAAAAAGT-CCATTTTTGA-CTCCG
* * ** * * *
9062 -AACTTCTAAAAATCCCATCTTTTATCCC-GAA-GCTTCCAAAAAAACC-TTTTTTACCCCT
1 AAACTTCTAAAAATTCCAT-TTTTACCCCTGAATG--TCCAAAAAGTCCATTTTTGACTCCG
* * * * * *
9120 TAACTTCTAAAAATCCCATTTTTTGA-CCCTAGAATTTCC-AAAATTCCA-TTTTAAC-CATG
1 AAACTTCTAAAAATTCCA-TTTTT-ACCCCT-GAATGTCCAAAAAGTCCATTTTTGACTC-CG
* * *
9179 AAACTTCTAAAAATTCCATTTTTAGCCCTGAACT-TCCTAAAATTCCATTTTTGACTCCG
1 AAACTTCTAAAAATTCCATTTTTACCCCTGAA-TGTCCAAAAAGTCCATTTTTGACTCCG
*
9238 AAACTTCCT-AAAATTACCA-TTTTACCCCTGGATGTCCAAAAAGTCCATTTTT
1 AAACTT-CTAAAAATT-CCATTTTTACCCCTGAATGTCCAAAAAGTCCATTTTT
9290 AACACTGAAT
Statistics
Matches: 187, Mismatches: 19, Indels: 45
0.75 0.08 0.18
Matches are distributed among these distances:
57 7 0.04
58 33 0.18
59 126 0.67
60 18 0.10
61 3 0.02
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (59 bp):
AAACTTCTAAAAATTCCATTTTTACCCCTGAATGTCCAAAAAGTCCATTTTTGACTCCG
Found at i:9338 original size:29 final size:29
Alignment explanation
Indices: 9304--9368 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
9294 CTGAATTTTC
*
9304 CCAAAATTAACGTTTTACCCCCCGAGAAT
1 CCAAAATTAACATTTTACCCCCCGAGAAT
* ** *
9333 CCAAAATTATCATTTTTGCCCTCGAGAAT
1 CCAAAATTAACATTTTACCCCCCGAGAAT
9362 CCGAAAA
1 CC-AAAA
9369 GTCTCATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.26
Consensus pattern (29 bp):
CCAAAATTAACATTTTACCCCCCGAGAAT
Done.