Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014134.1 Kokia drynarioides strain JFW-HI SEQ_129167, 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: 115649
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 247 characters in sequence are not A, C, G, or T
Found at i:769 original size:17 final size:17
Alignment explanation
Indices: 747--789 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
737 CCAACAGAAT
747 TTAAATTTATTTTAAAA
1 TTAAATTTATTTTAAAA
**
764 TTAAATTTATTTTAAGT
1 TTAAATTTATTTTAAAA
781 TTAAATTTA
1 TTAAATTTA
790 CTTAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTAAATTTATTTTAAAA
Found at i:836 original size:19 final size:20
Alignment explanation
Indices: 794--836 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
784 AATTTACTTA
*
794 ATTTAATTTAAGTATTTTGC
1 ATTTAATTTAAGTATTTCGC
* *
814 ATTTAATTT-CGTATTTCGT
1 ATTTAATTTAAGTATTTCGC
833 ATTT
1 ATTT
837 CTTATTTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.58
Consensus pattern (20 bp):
ATTTAATTTAAGTATTTCGC
Found at i:2813 original size:18 final size:17
Alignment explanation
Indices: 2733--2813 Score: 83
Period size: 17 Copynumber: 4.6 Consensus size: 17
2723 GCCCAACAGG
* *
2733 ATTTAAATTCATTTTAA
1 ATTTAAATTTATTATAA
* *
2750 AATTAAATTTATTTTAA
1 ATTTAAATTTATTATAA
*
2767 GTTTAAATTTACTTA-AA
1 ATTTAAATTTA-TTATAA
2784 ATTTTAAATTTATTATAA
1 A-TTTAAATTTATTATAA
2802 ATTTAAAGTTTA
1 ATTTAAA-TTTA
2814 AATCTATTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
17 35 0.65
18 19 0.35
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTTAAATTTATTATAA
Found at i:3504 original size:3 final size:3
Alignment explanation
Indices: 3498--3616 Score: 64
Period size: 3 Copynumber: 39.3 Consensus size: 3
3488 ATAATTGTTT
* * * *
3498 TAA TAA TAA TAA TAA TAA TAA TAT TAA TGA CAT TAA TAA TAA TAA -ACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* ** * ** * *
3546 GT-T TTT TAA TAA TCAT TAA TAA TAA TAAA TGC T-T TAA TGA TAA TAA
1 -TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
*
3592 TAA TAA TAA TAA TAA TAA TAT TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
3617 TATTTTAATA
Statistics
Matches: 88, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
2 3 0.03
3 80 0.91
4 5 0.06
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:3513 original size:24 final size:24
Alignment explanation
Indices: 3477--3598 Score: 68
Period size: 24 Copynumber: 4.7 Consensus size: 24
3467 TAATAACTAT
3477 TAATAA-AATTAATAATTGTTTTAA
1 TAATAATAA-TAATAATTGTTTTAA
** *
3501 TAATAATAATAATAATAATATTAA
1 TAATAATAATAATAATTGTTTTAA
3525 TGACATTAATAATAATAAACAGTT-TTTTAA
1 T-A-A-TAATAATAAT--A-A-TTGTTTTAA
* *
3555 TAATCATTAATAATAATAAATGCTTTAA
1 T-A--A-TAATAATAATAATTGTTTTAA
*
3583 TGATAATAATAATAAT
1 TAATAATAATAATAAT
3599 AATAATAATA
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
24 31 0.40
25 4 0.05
26 1 0.01
27 11 0.14
28 7 0.09
29 2 0.03
30 8 0.10
31 14 0.18
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.40
Consensus pattern (24 bp):
TAATAATAATAATAATTGTTTTAA
Found at i:3589 original size:31 final size:31
Alignment explanation
Indices: 3528--3603 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
3518 ATATTAATGA
**
3528 CATTAATAATAATAAACAGTTTTTTAATAAT
1 CATTAATAATAATAAACAGTTTAATAATAAT
* *
3559 CATTAATAATAATAAA-TGCTTTAATGATAAT
1 CATTAATAATAATAAACAG-TTTAATAATAAT
*
3590 -AATAATAATAATAA
1 CATTAATAATAATAA
3604 TAATAATATT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
30 14 0.36
31 25 0.64
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (31 bp):
CATTAATAATAATAAACAGTTTAATAATAAT
Found at i:4565 original size:29 final size:29
Alignment explanation
Indices: 4532--4631 Score: 105
Period size: 29 Copynumber: 3.4 Consensus size: 29
4522 CCCTAATTTG
4532 TCCAAAAATTACATTTTCACCCCTGAACT
1 TCCAAAAATTACATTTTCACCCCTGAACT
* *
4561 TCCAAAAATTCCATTTTCGA-CCTTGAAACT
1 TCCAAAAATTACATTTTC-ACCCCTG-AACT
* * **
4591 TCCAAAAATTCCATTTTTATCCCCAAAACT
1 TCCAAAAATTACATTTTCA-CCCCTGAACT
4621 TCC-AAAATTAC
1 TCCAAAAATTAC
4632 CGTTTTTCCC
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
29 29 0.48
30 29 0.48
31 2 0.03
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.32
Consensus pattern (29 bp):
TCCAAAAATTACATTTTCACCCCTGAACT
Found at i:4593 original size:30 final size:29
Alignment explanation
Indices: 4532--4627 Score: 113
Period size: 30 Copynumber: 3.2 Consensus size: 29
4522 CCCTAATTTG
*
4532 TCCAAAAATTACATTTTCACCCCTGAACT
1 TCCAAAAATTCCATTTTCACCCCTGAACT
*
4561 TCCAAAAATTCCATTTTCGA-CCTTGAAACT
1 TCCAAAAATTCCATTTTC-ACCCCTG-AACT
* **
4591 TCCAAAAATTCCATTTTTATCCCCAAAACT
1 TCCAAAAATTCCATTTTCA-CCCCTGAACT
4621 TCCAAAA
1 TCCAAAA
4628 TTACCGTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
29 22 0.39
30 33 0.58
31 2 0.04
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.31
Consensus pattern (29 bp):
TCCAAAAATTCCATTTTCACCCCTGAACT
Found at i:13909 original size:194 final size:194
Alignment explanation
Indices: 13554--14250 Score: 829
Period size: 194 Copynumber: 3.5 Consensus size: 194
13544 TTCGAACCCC
* * * * * *
13554 AGCTTCCTAATGAGATACTAAGAAGCGGACCAAATTTGTCTTCCTGATGAGGTACAGAGAAGCGG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCGG
* *
13619 ATTAAAACAAGTGAGGCGGTCAACTTCCTGATGAGATACAGAGAAGTATACCAACTCAATGTGAA
66 ATTAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATATCAACTCAATGTGAA
* * *
13684 CAAATCTTCGAATCCTAACTTCCTGATGAGATACTGAGAAGCAGGGCGAAGCAATAAAAAT-GTT
131 CAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAAT-AAAATGGTT
* *
13748 AACTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGTACAAAGAAGCGG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCGG
* * * *
13813 ATTGAAACAAGCGAGGCGGTCATCCTCCTGATGAGATACAGAGAAGTATATCAACTCAATGCGAA
66 ATTAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATATCAACTCAATGTGAA
* * * *
13878 CAAATCTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGCAGGTCGAGGTAATAAAATGGTT
131 CAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTT
* * *
13942 AGCTTCCCGATGAGATACTTAGAAGTGGACCAAATTCGCCTTCCTGATGAGATACAAAGAAGCGG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCGG
* * * * * * * ** *
14007 GTTGAAATAAGTGATGCGGTCATCTTCTTGAAGAGATATTAAGAAGAACACCAAATCAAACTCAC
66 ATTAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATA--CAG-AG-A-AGTATATC-AACTCA-
* * *
14072 GCTCGATGTGAGCAAATCTTCGAACCCTAGCTTCTTGATGAGATACTGAGAAGTAGGTCGAAGCA
124 -----ATGTGAACAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
*
14137 ATAAAGTGGTT
184 ATAAAATGGTT
* * ** * * * *
14148 AGCTTCCTGATGAGATACAGAGAAGTGAACCAAAACCGTCTTCCTGATGAAACACAGAGAAGTGG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCGG
* **
14213 ATCAAAACAAGTGATACGGTCATCTTCCTGATGAGATA
66 ATTAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATA
14251 TTGAGAAGAC
Statistics
Matches: 428, Mismatches: 62, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
193 5 0.01
194 260 0.61
196 2 0.00
197 2 0.00
198 1 0.00
199 5 0.01
200 6 0.01
206 147 0.34
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (194 bp):
AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCGG
ATTAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATATCAACTCAATGTGAA
CAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTT
Found at i:14191 original size:37 final size:37
Alignment explanation
Indices: 14150--14220 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
14140 AAGTGGTTAG
* *
14150 CTTCCTGATGAGATACAGAGAAGTGAACCAAAACCGT
1 CTTCCTGATGAAACACAGAGAAGTGAACCAAAACCGT
* *
14187 CTTCCTGATGAAACACAGAGAAGTGGATCAAAAC
1 CTTCCTGATGAAACACAGAGAAGTGAACCAAAAC
14221 AAGTGATACG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (37 bp):
CTTCCTGATGAAACACAGAGAAGTGAACCAAAACCGT
Found at i:14235 original size:206 final size:206
Alignment explanation
Indices: 13878--14259 Score: 530
Period size: 206 Copynumber: 1.9 Consensus size: 206
13868 TCAATGCGAA
* *
13878 CAAATCTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGCAGGTCGAGGTAATAAAATGGTTA
1 CAAATCTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTA
** * ** * * *
13943 GCTTCCCGATGAGATACTTAGAAGTGGACCAAATTCGCCTTCCTGATGAGATACAAAGAAGCGGG
66 GCTTCCCGATGAGATACAGAGAAGTGAACCAAAACCGCCTTCCTGATGAAACACAAAGAAGCGGA
** * * *
14008 TTGAAATAAGTGATGCGGTCATCTTCTTGAAGAGATATTAAGAAGAACACCAAATCAAACTCACG
131 TCAAAACAAGTGATACGGTCATCTTCCTGAAGAGATATTAAGAAGAACACCAAATCAAACTCACG
14073 CTCGATGTGAG
196 CTCGATGTGAG
* * * * *
14084 CAAATCTTCGAACCCTAGCTTCTTGATGAGATACTGAGAAGTAGGTCGAAGCAATAAAGTGGTTA
1 CAAATCTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTA
* * * *
14149 GCTTCCTGATGAGATACAGAGAAGTGAACCAAAACCGTCTTCCTGATGAAACACAGAGAAGTGGA
66 GCTTCCCGATGAGATACAGAGAAGTGAACCAAAACCGCCTTCCTGATGAAACACAAAGAAGCGGA
* *
14214 TCAAAACAAGTGATACGGTCATCTTCCTGATGAGATATTGAGAAGA
131 TCAAAACAAGTGATACGGTCATCTTCCTGAAGAGATATTAAGAAGA
14260 CCAAATCAAT
Statistics
Matches: 150, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
206 150 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (206 bp):
CAAATCTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTA
GCTTCCCGATGAGATACAGAGAAGTGAACCAAAACCGCCTTCCTGATGAAACACAAAGAAGCGGA
TCAAAACAAGTGATACGGTCATCTTCCTGAAGAGATATTAAGAAGAACACCAAATCAAACTCACG
CTCGATGTGAG
Found at i:14617 original size:17 final size:17
Alignment explanation
Indices: 14595--14637 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
14585 CCAACAGAAT
14595 TTAAATTTATTTTAAAA
1 TTAAATTTATTTTAAAA
**
14612 TTAAATTTATTTTAAGT
1 TTAAATTTATTTTAAAA
14629 TTAAATTTA
1 TTAAATTTA
14638 CTTAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTAAATTTATTTTAAAA
Found at i:14676 original size:20 final size:20
Alignment explanation
Indices: 14651--14699 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
14641 AATTTAAATT
14651 AATGTCCAAATACAAACAT-A
1 AATGTCCAAATACAAA-ATCA
* *
14671 AATGTCTAATTACAAAATCA
1 AATGTCCAAATACAAAATCA
14691 AA-GTCCAAA
1 AATGTCCAAA
14700 ATGTTTACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.53, C:0.18, G:0.06, T:0.22
Consensus pattern (20 bp):
AATGTCCAAATACAAAATCA
Found at i:15330 original size:3 final size:3
Alignment explanation
Indices: 15322--15446 Score: 88
Period size: 3 Copynumber: 41.3 Consensus size: 3
15312 ACCTTTAGTC
* * * *
15322 ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATG ACA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * *
15370 GTA ATA CTA ATA ATA ATA ATA TTA CTA ATG ACA TTA ATA ATA CTA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
15418 ACA GTA ATA ATA GTA ATAA ATA TTA ATA A
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA A
15447 ATATTATTAA
Statistics
Matches: 89, Mismatches: 32, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
3 86 0.97
4 3 0.03
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15381 original size:36 final size:36
Alignment explanation
Indices: 15332--15436 Score: 129
Period size: 36 Copynumber: 2.8 Consensus size: 36
15322 ATAATAATAA
* *
15332 TAATAACAATAATAATAATAATAATAATAATGACAT
1 TAATAATACTAATAATAATAATAATAATAATGACAT
* * *
15368 TAGTAATACTAATAATAATAATATTACTAATGACAT
1 TAATAATACTAATAATAATAATAATAATAATGACAT
*
15404 TAATAATACTAATGACAGTAATAATAGTAATAA
1 TAATAATACTAAT-A-A-TAATAATAATAATAA
15437 ATATTAATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
36 43 0.74
37 1 0.02
38 1 0.02
39 13 0.22
ACGTcount: A:0.55, C:0.07, G:0.06, T:0.32
Consensus pattern (36 bp):
TAATAATACTAATAATAATAATAATAATAATGACAT
Found at i:15393 original size:24 final size:24
Alignment explanation
Indices: 15322--15446 Score: 97
Period size: 24 Copynumber: 5.2 Consensus size: 24
15312 ACCTTTAGTC
* *
15322 ATAATAATAATAATAACAATAATA
1 ATAATAATAATAATAATAATATTA
* *
15346 ATAATAATAATAATAATGACATTA
1 ATAATAATAATAATAATAATATTA
* *
15370 GTAATACTAATAATAATAATATTA
1 ATAATAATAATAATAATAATATTA
* * * * * * *
15394 CTAATGACATTAATAATACTAATG
1 ATAATAATAATAATAATAATATTA
* * *
15418 ACAGTAATAATAGTAATAAATATTA
1 ATAATAATAATAATAAT-AATATTA
15443 ATAA
1 ATAA
15447 ATATTATTAA
Statistics
Matches: 72, Mismatches: 28, Indels: 1
0.71 0.28 0.01
Matches are distributed among these distances:
24 66 0.92
25 6 0.08
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.33
Consensus pattern (24 bp):
ATAATAATAATAATAATAATATTA
Found at i:16644 original size:29 final size:29
Alignment explanation
Indices: 16592--16913 Score: 275
Period size: 30 Copynumber: 11.0 Consensus size: 29
16582 CAAAACCTCG
* * *
16592 AAACTTTCAAAAAATTAAAATTTTACCCCT
1 AAAC-TTCCAAAAATTACATTTTTACCCCT
*
16622 AAACTTCCAAAAATTACATTTTTACCCTT
1 AAACTTCCAAAAATTACATTTTTACCCCT
* **
16651 CAAATTTGAAAAAATTACATTTTTACCCCT
1 -AAACTTCCAAAAATTACATTTTTACCCCT
* *
16681 AAACTTCCAAAAATTCCATGTTTGT-CCCCA
1 AAACTTCCAAAAATTACAT-TTT-TACCCCT
* *
16711 AAACTTTCAAAAATTACATTTTTA-CTCT
1 AAACTTCCAAAAATTACATTTTTACCCCT
*
16739 CAAACTTCC-AAAATT-CTATTTTTGACCCCA
1 -AAACTTCCAAAAATTAC-ATTTTT-ACCCCT
*
16769 AAACTT-AAAAAATTTACCA--TTTA-CCCT
1 AAACTTCCAAAAA-TTA-CATTTTTACCCCT
* *
16796 CAAACTTCCAAAAATTCCATTTTTGACCCCA
1 -AAACTTCCAAAAATTACATTTTT-ACCCCT
*
16827 AAATTTCCAAAAATTACATTTTTACCCCT
1 AAACTTCCAAAAATTACATTTTTACCCCT
* * * *
16856 AAACTTACAAAAATTTCATTTTTGATCCCA
1 AAACTTCCAAAAATTACATTTTT-ACCCCT
*
16886 AAACTTCTAAAAATTATCA-TTTTACCCC
1 AAACTTCCAAAAATTA-CATTTTTACCCC
16914 CGAGTATCCA
Statistics
Matches: 235, Mismatches: 37, Indels: 41
0.75 0.12 0.13
Matches are distributed among these distances:
27 6 0.03
28 24 0.10
29 97 0.41
30 100 0.43
31 7 0.03
32 1 0.00
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (29 bp):
AAACTTCCAAAAATTACATTTTTACCCCT
Found at i:16664 original size:59 final size:58
Alignment explanation
Indices: 16600--16913 Score: 340
Period size: 59 Copynumber: 5.4 Consensus size: 58
16590 CGAAACTTTC
* * *
16600 AAAAAATTAAAATTTTACCCCTAAACTTCCAAAAATTACATTTTT-ACCCTTC-AAATTT
1 AAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCC--CAAAATTT
* *
16658 GAAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTCCATGTTTGTCCCCAAAACTTT
1 -AAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAAA-TTT
* * * *
16718 CAAAAATTACATTTTTA-CTCTCAAACTTCC-AAAATTCTATTTTTGACCCCAAAACTT
1 AAAAAATTACATTTTTACCCCT-AAACTTCCAAAAATTCCATTTTTGACCCCAAAATTT
16775 AAAAAATTTACCA--TTTA-CCCTCAAACTTCCAAAAATTCCATTTTTGACCCCAAAATTT
1 AAAAAA-TTA-CATTTTTACCCCT-AAACTTCCAAAAATTCCATTTTTGACCCCAAAATTT
* * * *
16833 CCAAAAATTACATTTTTACCCCTAAACTTACAAAAATTTCATTTTTGATCCCAAAACTTCT
1 -AAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAAA-TT-T
16894 -AAAAATTATCA-TTTTACCCC
1 AAAAAATTA-CATTTTTACCCC
16914 CGAGTATCCA
Statistics
Matches: 222, Mismatches: 19, Indels: 28
0.83 0.07 0.10
Matches are distributed among these distances:
57 25 0.11
58 56 0.25
59 126 0.57
60 14 0.06
61 1 0.00
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (58 bp):
AAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAAATTT
Found at i:17999 original size:56 final size:56
Alignment explanation
Indices: 17913--18026 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
17903 ATCCAATCAC
17913 ACCAAATAAAATATTGATGACGACTCCTATTTTTCAATTTAAAATAAATTTTTGAA
1 ACCAAATAAAATATTGATGACGACTCCTATTTTTCAATTTAAAATAAATTTTTGAA
17969 ACCAAATAAAATATTGATGACGACTCCTATTTTTCAATTTAAAATAAATTTTTGAA
1 ACCAAATAAAATATTGATGACGACTCCTATTTTTCAATTTAAAATAAATTTTTGAA
18025 AC
1 AC
18027 TTTGTTTTAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (56 bp):
ACCAAATAAAATATTGATGACGACTCCTATTTTTCAATTTAAAATAAATTTTTGAA
Found at i:22516 original size:16 final size:16
Alignment explanation
Indices: 22478--22523 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
22468 GATCTAAGGA
22478 AAAAT-AAAATAAACAG
1 AAAATAAAAATAAA-AG
*
22494 -AATTAAAAATAAAAG
1 AAAATAAAAATAAAAG
*
22509 AAAATAAAATTAAAA
1 AAAATAAAAATAAAA
22524 CAAACAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 5 0.20
16 20 0.80
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.17
Consensus pattern (16 bp):
AAAATAAAAATAAAAG
Found at i:22519 original size:22 final size:22
Alignment explanation
Indices: 22477--22537 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
22467 CGATCTAAGG
* * *
22477 AAAAATAAAA-TAAACAGAATT
1 AAAAATAAAAGAAAATAAAATT
22498 AAAAATAAAAGAAAATAAAATT
1 AAAAATAAAAGAAAATAAAATT
*
22520 AAAACA-AACAGAAAATAA
1 AAAA-ATAAAAGAAAATAA
22538 GGAAGTCGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 10 0.29
22 23 0.68
23 1 0.03
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAAAATT
Found at i:23347 original size:19 final size:19
Alignment explanation
Indices: 23323--23366 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
23313 ATACAAAAAG
23323 ATAAATATAAAT-TTAAATA
1 ATAAATA-AAATCTTAAATA
*
23342 ATAAATAATATCTTAAATA
1 ATAAATAAAATCTTAAATA
*
23361 TTAAAT
1 ATAAAT
23367 CCTAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
ATAAATAAAATCTTAAATA
Found at i:26818 original size:29 final size:29
Alignment explanation
Indices: 26782--26842 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
26772 GGGTCTCTTT
* *
26782 TAAAA-AAAATTATAAAATA-TAATACAA
1 TAAAATAAAAATATAAAATAGTAATAAAA
* *
26809 TAAAATAAAAATATATACTAGTAATAAAA
1 TAAAATAAAAATATAAAATAGTAATAAAA
26838 TAAAA
1 TAAAA
26843 AAATTAGGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.18
28 11 0.39
29 12 0.43
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (29 bp):
TAAAATAAAAATATAAAATAGTAATAAAA
Found at i:27978 original size:11 final size:12
Alignment explanation
Indices: 27964--27995 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
27954 CGAGCAGTTT
27964 TTATGTTTTTA-
1 TTATGTTTTTAC
27975 TTATGTTTTTAC
1 TTATGTTTTTAC
27987 TTA-GTTTTT
1 TTATGTTTTT
27996 GTTTTTAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.85
12 3 0.15
ACGTcount: A:0.16, C:0.03, G:0.09, T:0.72
Consensus pattern (12 bp):
TTATGTTTTTAC
Found at i:28318 original size:101 final size:101
Alignment explanation
Indices: 28138--28345 Score: 389
Period size: 101 Copynumber: 2.1 Consensus size: 101
28128 CCTAGAAAAA
28138 GGGTATCGCGACACCGAAGCGTGGAAGTCGCAACATCTCTGAAAAGCCCGAAATGAAGAATAAAA
1 GGGTATCGCGACACCGAAGCGTGGAAGTCGCAACATCTCTGAAAAGCCCGAAATGAAGAATAAAA
*
28203 AAAGTCATCCATAATATTATCATGATACCTACCCTT
66 AAAGTCATCCATAATAGTATCATGATACCTACCCTT
*
28239 GGGTATCGCGACACCGAAGCGTGGAAGTCGCAACATCTCTGACAAGCCCGAAATGAAGAATAAAA
1 GGGTATCGCGACACCGAAGCGTGGAAGTCGCAACATCTCTGAAAAGCCCGAAATGAAGAATAAAA
*
28304 AAAGTCATCTATAATAGTATCATGATACCTACCCTT
66 AAAGTCATCCATAATAGTATCATGATACCTACCCTT
28340 GGGTAT
1 GGGTAT
28346 TGTAAAATCC
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 104 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (101 bp):
GGGTATCGCGACACCGAAGCGTGGAAGTCGCAACATCTCTGAAAAGCCCGAAATGAAGAATAAAA
AAAGTCATCCATAATAGTATCATGATACCTACCCTT
Found at i:30228 original size:20 final size:20
Alignment explanation
Indices: 30186--30239 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
30176 GAAAATATAG
*
30186 ATTTTGAAATTTTTATAAAT
1 ATTTTGAAATTTTTAAAAAT
30206 ATTTT-AAATTTTTAAAAATT
1 ATTTTGAAATTTTTAAAAA-T
*
30226 ATTTTGTAATTTTT
1 ATTTTGAAATTTTT
30240 GTTGAGAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 12 0.40
20 11 0.37
21 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (20 bp):
ATTTTGAAATTTTTAAAAAT
Found at i:31856 original size:96 final size:96
Alignment explanation
Indices: 31692--31883 Score: 366
Period size: 96 Copynumber: 2.0 Consensus size: 96
31682 TTAAGAGTAT
*
31692 TTTCGAGAATTATACCGAGTGTTGACTTGAAAGTCTAGTTGTTATGTGTGCGGCAACTAAGAAAA
1 TTTCGAGAATTATACCGAGTGTTGACTCGAAAGTCTAGTTGTTATGTGTGCGGCAACTAAGAAAA
31757 TAACTAAAAAAATGGAAATATAAAACAAGAA
66 TAACTAAAAAAATGGAAATATAAAACAAGAA
*
31788 TTTCGAGAATTATGCCGAGTGTTGACTCGAAAGTCTAGTTGTTATGTGTGCGGCAACTAAGAAAA
1 TTTCGAGAATTATACCGAGTGTTGACTCGAAAGTCTAGTTGTTATGTGTGCGGCAACTAAGAAAA
31853 TAACTAAAAAAATGGAAATATAAAACAAGAA
66 TAACTAAAAAAATGGAAATATAAAACAAGAA
31884 ACACAACACA
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (96 bp):
TTTCGAGAATTATACCGAGTGTTGACTCGAAAGTCTAGTTGTTATGTGTGCGGCAACTAAGAAAA
TAACTAAAAAAATGGAAATATAAAACAAGAA
Found at i:33436 original size:20 final size:21
Alignment explanation
Indices: 33398--33474 Score: 108
Period size: 20 Copynumber: 3.9 Consensus size: 21
33388 TTTATATTGT
*
33398 TGTTTTGGTGTTATTTTTTAC
1 TGTTTTGGTGTTGTTTTTTAC
33419 TGTTTTGG-GTTGTTTTTTAC
1 TGTTTTGGTGTTGTTTTTTAC
*
33439 TATTTT-G-GTT-TTTTTTAC
1 TGTTTTGGTGTTGTTTTTTAC
33457 TGTTTTGGTGTTGTTTTT
1 TGTTTTGGTGTTGTTTTT
33475 AGTTTTGGTA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
18 13 0.26
19 5 0.10
20 19 0.38
21 13 0.26
ACGTcount: A:0.06, C:0.04, G:0.21, T:0.69
Consensus pattern (21 bp):
TGTTTTGGTGTTGTTTTTTAC
Found at i:33452 original size:18 final size:18
Alignment explanation
Indices: 33411--33483 Score: 87
Period size: 18 Copynumber: 3.9 Consensus size: 18
33401 TTTGGTGTTA
33411 TTTTTTACTGTTTTGGGTT
1 TTTTTTACTGTTTT-GGTT
*
33430 GTTTTTTACTATTTTGGTT
1 -TTTTTTACTGTTTTGGTT
33449 TTTTTTACTGTTTTGGTGT
1 TTTTTTACTGTTTTGGT-T
33468 TGTTTTTA--GTTTTGGT
1 T-TTTTTACTGTTTTGGT
33484 ATTATTTCTG
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
18 24 0.49
19 6 0.12
20 19 0.39
ACGTcount: A:0.07, C:0.04, G:0.21, T:0.68
Consensus pattern (18 bp):
TTTTTTACTGTTTTGGTT
Found at i:33475 original size:20 final size:20
Alignment explanation
Indices: 33398--33483 Score: 101
Period size: 20 Copynumber: 4.5 Consensus size: 20
33388 TTTATATTGT
*
33398 TGTTTTGGTGTTATTTTTTAC
1 TGTTTTGGTGTT-GTTTTTAC
33419 TGTTTTGG-GTTGTTTTTTAC
1 TGTTTTGGTGTTG-TTTTTAC
*
33439 TATTTTGGT-TT-TTTTTAC
1 TGTTTTGGTGTTGTTTTTAC
33457 TGTTTTGGTGTTGTTTTTA-
1 TGTTTTGGTGTTGTTTTTAC
33476 -GTTTTGGT
1 TGTTTTGGT
33484 ATTATTTCTG
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
18 23 0.40
19 2 0.03
20 25 0.43
21 8 0.14
ACGTcount: A:0.07, C:0.03, G:0.22, T:0.67
Consensus pattern (20 bp):
TGTTTTGGTGTTGTTTTTAC
Found at i:37941 original size:25 final size:25
Alignment explanation
Indices: 37913--38006 Score: 89
Period size: 25 Copynumber: 3.8 Consensus size: 25
37903 AAGGACTACC
* *
37913 CAAGTAAATCGCCATAAAGGTTTTA
1 CAAGTAAATCGCCAAAAAGGCTTTA
* * * **
37938 CAAGTGACTCACCAAAAAGGCTTCC
1 CAAGTAAATCGCCAAAAAGGCTTTA
*
37963 CAAGTAAATCGCCACAAAGGCTTTA
1 CAAGTAAATCGCCAAAAAGGCTTTA
* * *
37988 CACGTGACTCGCCAAAAAG
1 CAAGTAAATCGCCAAAAAG
38007 ACACCATATA
Statistics
Matches: 52, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (25 bp):
CAAGTAAATCGCCAAAAAGGCTTTA
Found at i:37965 original size:50 final size:50
Alignment explanation
Indices: 37911--38006 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
37901 TCAAGGACTA
* *
37911 CCCAAGTAAATCGCCATAAAGGTTTTACAAGTGACTCACCAAAAAGGCTT
1 CCCAAGTAAATCGCCACAAAGGCTTTACAAGTGACTCACCAAAAAGGCTT
* *
37961 CCCAAGTAAATCGCCACAAAGGCTTTACACGTGACTCGCCAAAAAG
1 CCCAAGTAAATCGCCACAAAGGCTTTACAAGTGACTCACCAAAAAG
38007 ACACCATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.19
Consensus pattern (50 bp):
CCCAAGTAAATCGCCACAAAGGCTTTACAAGTGACTCACCAAAAAGGCTT
Found at i:39968 original size:6 final size:6
Alignment explanation
Indices: 39959--40007 Score: 66
Period size: 6 Copynumber: 8.3 Consensus size: 6
39949 TTAAACTAAG
*
39959 TTTAAA TTTAAA -TTAAG TTTAAA TTT-AA TTTGAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA
40006 TT
1 TT
40008 AATTAAAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 9 0.24
6 24 0.63
7 5 0.13
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:39999 original size:18 final size:17
Alignment explanation
Indices: 39932--40009 Score: 86
Period size: 17 Copynumber: 4.6 Consensus size: 17
39922 TCATTTTGGG
* *
39932 TTTAAATT-AGTTTAAG
1 TTTAAATTAAATTTAAA
* *
39948 TTTAAACTAAGTTTAAA
1 TTTAAATTAAATTTAAA
*
39965 TTTAAATTAAGTTTAAA
1 TTTAAATTAAATTTAAA
*
39982 TTTAATTTGAAATTTAAA
1 TTTAAATT-AAATTTAAA
40000 TTTAAATTAA
1 TTTAAATTAA
40010 TTAAAAAGGG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
16 7 0.13
17 32 0.59
18 15 0.28
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTAAATTAAATTTAAA
Found at i:40247 original size:19 final size:19
Alignment explanation
Indices: 40223--40261 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
40213 AACTTGCACT
*
40223 GCCACCAGCTAATGCAACC
1 GCCACCAACTAATGCAACC
40242 GCCACCAACTAATGCAACC
1 GCCACCAACTAATGCAACC
40261 G
1 G
40262 TCGCCGAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.41, G:0.15, T:0.10
Consensus pattern (19 bp):
GCCACCAACTAATGCAACC
Found at i:41796 original size:17 final size:17
Alignment explanation
Indices: 41773--41840 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
41763 TCTTTTTTTT
41773 AATTTATTTAAAATTTA
1 AATTTATTTAAAATTTA
* *
41790 GATTTATTTTAAATTTA
1 AATTTATTTAAAATTTA
*
41807 AATTAATCTT-AAATTTA
1 AATTTAT-TTAAAATTTA
41824 AATTTAATTTCAAAATT
1 AATTT-ATTT-AAAATT
41841 AAAAGTCCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
17 33 0.79
18 4 0.10
19 5 0.12
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (17 bp):
AATTTATTTAAAATTTA
Found at i:41806 original size:6 final size:6
Alignment explanation
Indices: 41778--41843 Score: 50
Period size: 6 Copynumber: 11.2 Consensus size: 6
41768 TTTTTAATTT
* *
41778 ATTTAAA ATTTAG ATTT-A TTTTAA ATTTAA A-TT-A ATCTTAA ATTTAA
1 ATTT-AA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA
*
41825 ATTT-A ATTTCAA AATTAA A
1 ATTTAA ATTT-AA ATTTAA A
41844 AGTCCAATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
4 2 0.04
5 10 0.21
6 25 0.52
7 11 0.23
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (6 bp):
ATTTAA
Found at i:41812 original size:11 final size:12
Alignment explanation
Indices: 41778--41843 Score: 50
Period size: 11 Copynumber: 5.6 Consensus size: 12
41768 TTTTTAATTT
*
41778 ATTTAAAATTTAG
1 ATTT-AAATTTAA
*
41791 ATTT-ATTTTAA
1 ATTTAAATTTAA
41802 ATTTAAA-TT-A
1 ATTTAAATTTAA
41812 ATCTTAAATTTAA
1 AT-TTAAATTTAA
41825 ATTT-AATTTCAA
1 ATTTAAATTT-AA
*
41837 AATTAAA
1 ATTTAAA
41844 AGTCCAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
10 3 0.07
11 21 0.49
12 10 0.23
13 9 0.21
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (12 bp):
ATTTAAATTTAA
Found at i:41860 original size:14 final size:15
Alignment explanation
Indices: 41841--41870 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
41831 TTTCAAAATT
41841 AAAAGTCC-AATTAC
1 AAAAGTCCAAATTAC
41855 AAAAGTCCAAATTAC
1 AAAAGTCCAAATTAC
41870 A
1 A
41871 TGTCCAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.53, C:0.20, G:0.07, T:0.20
Consensus pattern (15 bp):
AAAAGTCCAAATTAC
Found at i:43690 original size:29 final size:29
Alignment explanation
Indices: 43642--44017 Score: 354
Period size: 30 Copynumber: 12.7 Consensus size: 29
43632 GAGGTCTCTA
* *
43642 AACTATCCAAAAATTTCATTTTTACCCTTG
1 AACT-TCCAAAAATTCCATTTTTACCCTCG
* *
43672 AACTTCCAAAAAATCCATTTTTTACCCTCA
1 AACTTCCAAAAATTCCA-TTTTTACCCTCG
*
43702 AACTTCCAAAAATTCCATTTTTAACCC-CAA
1 AACTTCCAAAAATTCCATTTTT-ACCCTC-G
*
43732 AACTTCCAAAAATTCCGTTTTTGA-CCTCG
1 AACTTCCAAAAATTCCATTTTT-ACCCTCG
* * *
43761 AAACTTCCAAAAATTCCA-TTTCACCCCCA
1 -AACTTCCAAAAATTCCATTTTTACCCTCG
* *
43790 AACTTCCAAAACTTCCATTTTTACCCCCG
1 AACTTCCAAAAATTCCATTTTTACCCTCG
**
43819 AACTTCCAAAAATTCCATTTTTGACCCTAA
1 AACTTCCAAAAATTCCATTTTT-ACCCTCG
*
43849 AACTTCCAAAAATTCCATTTTCACCC-CTG
1 AACTTCCAAAAATTCCATTTTTACCCTC-G
** *
43878 AACTTCCAAAAATTATATTTTTGATCC-CG
1 AACTTCCAAAAATTCCATTTTT-ACCCTCG
43907 AAACTTCCAAAAATTCCATTTTTACCCTCG
1 -AACTTCCAAAAATTCCATTTTTACCCTCG
* *
43937 AACCTCCAAAATTTCCATTTTTTA-CCTCG
1 AACTTCCAAAAATTCCA-TTTTTACCCTCG
* **
43966 AAACTTTCAAAAATTACCA-TTTGGCCCTCG
1 -AACTTCCAAAAATT-CCATTTTTACCCTCG
*
43996 AA-TATCCAAAAAACTCCATTTT
1 AACT-TCC-AAAAATTCCATTTT
44018 CGACCTCGAA
Statistics
Matches: 289, Mismatches: 38, Indels: 38
0.79 0.10 0.10
Matches are distributed among these distances:
28 18 0.06
29 112 0.39
30 156 0.54
31 3 0.01
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (29 bp):
AACTTCCAAAAATTCCATTTTTACCCTCG
Found at i:43743 original size:59 final size:59
Alignment explanation
Indices: 43641--43987 Score: 371
Period size: 59 Copynumber: 5.9 Consensus size: 59
43631 GGAGGTCTCT
* *** *
43641 AAACTATCCAAAAATTTCATTTTT-ACCCTTGAACTTCCAAAAAATCCATTTTTTACCCTC
1 AAACT-TCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTCCA-TTTTTACCCTC
* *
43701 AAACTTCCAAAAATTCCATTTTTAACCCCAAAACTTCCAAAAATTCCGTTTTTGA-CCTC
1 AAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTCCATTTTT-ACCCTC
* * * *
43760 GAAACTTCCAAAAATTCCA--TTTCACCCCCAAACTTCCAAAACTTCCATTTTTACCCCC
1 -AAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTCCATTTTTACCCTC
* * *
43818 GAACTTCCAAAAATTCCATTTTTGACCCTAAAACTTCCAAAAATTCCATTTTCACCC-C
1 AAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTCCATTTTTACCCTC
* ** * *
43876 TGAACTTCCAAAAATTATATTTTTGATCCCGAAACTTCCAAAAATTCCATTTTTACCCTC
1 -AAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTCCATTTTTACCCTC
* * * * * * *
43936 GAACCTCCAAAATTTCCATTTTTTACCTCGAAACTTTCAAAAATTACCATTT
1 AAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATT-CCATTT
43988 GGCCCTCGAA
Statistics
Matches: 247, Mismatches: 31, Indels: 18
0.83 0.10 0.06
Matches are distributed among these distances:
57 18 0.07
58 33 0.13
59 146 0.59
60 50 0.20
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.33
Consensus pattern (59 bp):
AAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTCCATTTTTACCCTC
Found at i:43994 original size:59 final size:57
Alignment explanation
Indices: 43642--44030 Score: 351
Period size: 59 Copynumber: 6.6 Consensus size: 57
43632 GAGGTCTCTA
* * *
43642 AACTATCCAAAAATTTCATTTTT-ACCCTTG-AACTTCCAAAAAATCCATTTTTTACCCTCA
1 AACT-TCCAAAAATTCCATTTTTGACCC--GAAACTTCCAAAAATTCCA--TTTTACCCTCG
* * *
43702 AACTTCCAAAAATTCCATTTTTAACCCCAAAACTTCCAAAAATTCCGTTTTTGA-CCTCG
1 AACTTCCAAAAATTCCATTTTTGA-CCCGAAACTTCCAAAAATTCC-ATTTT-ACCCTCG
* * * *
43761 AAACTTCCAAAAATTCCA--TTTCACCCCCAAACTTCCAAAACTTCCATTTTTACCCCCG
1 -AACTTCCAAAAATTCCATTTTTGA-CCCGAAACTTCCAAAAATTCCA-TTTTACCCTCG
*
43819 AACTTCCAAAAATTCCATTTTTGACCCTAAAACTTCCAAAAATTCCATTTTCACCC-CTG
1 AACTTCCAAAAATTCCATTTTTGACCC-GAAACTTCCAAAAATTCCATTTT-ACCCTC-G
**
43878 AACTTCCAAAAATTATATTTTTGATCCCGAAACTTCCAAAAATTCCATTTTTACCCTCG
1 AACTTCCAAAAATTCCATTTTTGA-CCCGAAACTTCCAAAAATTCCA-TTTTACCCTCG
* * * * **
43937 AACCTCCAAAATTTCCATTTTTTACCTCGAAACTTTCAAAAATTACCATTTGGCCCTCG
1 AACTTCCAAAAATTCCATTTTTGACC-CGAAACTTCCAAAAATT-CCATTTTACCCTCG
* *
43996 AA-TATCCAAAAAACTCCATTTTCGACCTCGAAACT
1 AACT-TCC-AAAAATTCCATTTTTGACC-CGAAACT
44031 CTCAAAATCA
Statistics
Matches: 280, Mismatches: 29, Indels: 40
0.80 0.08 0.11
Matches are distributed among these distances:
57 18 0.06
58 42 0.15
59 145 0.52
60 72 0.26
61 3 0.01
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (57 bp):
AACTTCCAAAAATTCCATTTTTGACCCGAAACTTCCAAAAATTCCATTTTACCCTCG
Found at i:44129 original size:63 final size:63
Alignment explanation
Indices: 44052--44177 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 63
44042 CCTTTTACCC
* * *
44052 CGAATGTCTAAGAATTCCACTATTAACCCCAAATTTTCCCAAAATAACCTTTTTTCCCTTGGG
1 CGAATGTCTAAGAATTCCACTATTAACCCCAAAATTTCCCAAAATAACCATTTTGCCCTTGGG
* *
44115 CGAATGTCTAAGAATTCCACTCTTAACCCCAAAATTTCCCAAAATTACCATTTTGCCCTTGGG
1 CGAATGTCTAAGAATTCCACTATTAACCCCAAAATTTCCCAAAATAACCATTTTGCCCTTGGG
44178 TATCCGAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.32
Consensus pattern (63 bp):
CGAATGTCTAAGAATTCCACTATTAACCCCAAAATTTCCCAAAATAACCATTTTGCCCTTGGG
Found at i:64450 original size:43 final size:43
Alignment explanation
Indices: 64402--64487 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
64392 TGGGAGCCAG
64402 TTGTTGGTGGATGTTGCTAATGAGATGTTGCCACGTGGTAGAA
1 TTGTTGGTGGATGTTGCTAATGAGATGTTGCCACGTGGTAGAA
*
64445 TTGTTGGTGGATGTTGTTAATGAGATGTTGCCACGTGGTAGAA
1 TTGTTGGTGGATGTTGCTAATGAGATGTTGCCACGTGGTAGAA
64488 CAAGTGGTAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.21, C:0.08, G:0.35, T:0.36
Consensus pattern (43 bp):
TTGTTGGTGGATGTTGCTAATGAGATGTTGCCACGTGGTAGAA
Found at i:66298 original size:30 final size:30
Alignment explanation
Indices: 66264--66339 Score: 95
Period size: 30 Copynumber: 2.5 Consensus size: 30
66254 CCAAATTTGC
66264 TTTAAGGACTAAATTG-GAAT-TTCAGTGACA-
1 TTTAAGGACTAAATTGTG-ATCTT-AGTGA-AG
66294 TTTAAGGACTAAATTGTGATCTTAGTGAAG
1 TTTAAGGACTAAATTGTGATCTTAGTGAAG
*
66324 TTTAGGGACTAAATTG
1 TTTAAGGACTAAATTG
66340 AACTCTAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
29 1 0.02
30 38 0.90
31 3 0.07
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (30 bp):
TTTAAGGACTAAATTGTGATCTTAGTGAAG
Found at i:83234 original size:13 final size:12
Alignment explanation
Indices: 83214--83264 Score: 56
Period size: 11 Copynumber: 4.5 Consensus size: 12
83204 TTTAAGCAAG
83214 AAATAT-TTTTA
1 AAATATATTTTA
83225 AAATATATTTTA
1 AAATATATTTTA
*
83237 AAAT-TATATT-
1 AAATATATTTTA
83247 AAATA-ATTTTTA
1 AAATATA-TTTTA
83259 AAATAT
1 AAATAT
83265 TTATACTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 5 0.15
11 14 0.42
12 14 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
AAATATATTTTA
Found at i:86747 original size:19 final size:18
Alignment explanation
Indices: 86712--86765 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
86702 ACTTTAAATC
86712 TAAATTTAAATTCATTTTT
1 TAAATTTAAATT-ATTTTT
86731 TAAATTTAAA--ATTATTT
1 TAAATTTAAATTATT-TTT
*
86748 TAAATTTGAAATAATTTT
1 TAAATTT-AAATTATTTT
86766 AAACTTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
16 3 0.10
17 10 0.32
18 3 0.10
19 12 0.39
20 3 0.10
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
TAAATTTAAATTATTTTT
Found at i:86750 original size:17 final size:17
Alignment explanation
Indices: 86728--86774 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
86718 TAAATTCATT
*
86728 TTTTAAATTTAAAATTA
1 TTTTAAATTTAAAATAA
*
86745 TTTTAAATTTGAAATAA
1 TTTTAAATTTAAAATAA
*
86762 TTTTAAACTTAAA
1 TTTTAAATTTAAA
86775 TTTAAAATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TTTTAAATTTAAAATAA
Found at i:88580 original size:31 final size:30
Alignment explanation
Indices: 88545--88719 Score: 157
Period size: 30 Copynumber: 5.9 Consensus size: 30
88535 GGAGGTCCCT
*
88545 AAACTGTCCAAAAATGT-CATTTTTACCCTTA
1 AAACT-TCCAAAAAT-TACATTTTTACCCTCA
* * *
88576 AAACTTTCAAAAAATATATTTTTTACCC-CA
1 AAACTTCCAAAAATTACA-TTTTTACCCTCA
* *
88606 AAACTTCCAAAAATTCCATTTTTAACCTCA
1 AAACTTCCAAAAATTACATTTTTACCCTCA
*
88636 AAACTTCCAAAAATTACA-TTTTACCC-CC
1 AAACTTCCAAAAATTACATTTTTACCCTCA
* * * *
88664 AAACCTCCAAAAATTTCATTTTAACCC-CG
1 AAACTTCCAAAAATTACATTTTTACCCTCA
88693 AAAC-TCTCAAAAATTACCA-TTTTACCC
1 AAACTTC-CAAAAATTA-CATTTTTACCC
88720 CCGAATATCC
Statistics
Matches: 120, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
28 19 0.16
29 43 0.36
30 44 0.37
31 14 0.12
ACGTcount: A:0.39, C:0.27, G:0.02, T:0.32
Consensus pattern (30 bp):
AAACTTCCAAAAATTACATTTTTACCCTCA
Found at i:88597 original size:30 final size:30
Alignment explanation
Indices: 88545--88719 Score: 121
Period size: 29 Copynumber: 5.9 Consensus size: 30
88535 GGAGGTCCCT
* *
88545 AAACTGTCC-AAAAATGTCATTTTTACCCTTA
1 AAACT-TCCAAAAAAT-ACATTTTTACCCTCA
* *
88576 AAACTTTCAAAAAATATATTTTTTACCC-CA
1 AAACTTCCAAAAAATACA-TTTTTACCCTCA
* * *
88606 AAACTTCCAAAAATTCCATTTTTAACCTCA
1 AAACTTCCAAAAAATACATTTTTACCCTCA
* *
88636 AAACTTCCAAAAATTACA-TTTTACCC-CC
1 AAACTTCCAAAAAATACATTTTTACCCTCA
* * * * *
88664 AAACCTCCAAAAATTTCATTTTAACCC-CG
1 AAACTTCCAAAAAATACATTTTTACCCTCA
*
88693 AAAC-TCTCAAAAATTACCA-TTTTACCC
1 AAACTTC-CAAAAAATA-CATTTTTACCC
88720 CCGAATATCC
Statistics
Matches: 120, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
28 19 0.16
29 42 0.35
30 39 0.32
31 20 0.17
ACGTcount: A:0.39, C:0.27, G:0.02, T:0.32
Consensus pattern (30 bp):
AAACTTCCAAAAAATACATTTTTACCCTCA
Found at i:88647 original size:60 final size:57
Alignment explanation
Indices: 88545--88720 Score: 185
Period size: 58 Copynumber: 3.0 Consensus size: 57
88535 GGAGGTCCCT
* * * **
88545 AAACTGTCCAAAAATGTCATTTTTACCCTTAAAACTTTCAAAAAATATATTTTTTACCCCA
1 AAACT-TCCAAAAAT-TCATTTTTAACCTCAAAAC-TTCCAAAAAT-TACATTTTACCCCA
*
88606 AAACTTCCAAAAATTCCATTTTTAACCTCAAAACTTCCAAAAATTACATTTTACCCCC
1 AAACTTCCAAAAATT-CATTTTTAACCTCAAAACTTCCAAAAATTACATTTTACCCCA
* * *
88664 AAACCTCCAAAAATTTCA-TTTTAACCCCGAAAC-TCTCAAAAATTACCATTTTACCCC
1 AAACTTCCAAAAA-TTCATTTTTAACCTCAAAACTTC-CAAAAATTA-CATTTTACCCC
88721 CGAATATCCA
Statistics
Matches: 102, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
56 2 0.02
57 22 0.22
58 36 0.35
59 12 0.12
60 25 0.25
61 5 0.05
ACGTcount: A:0.39, C:0.27, G:0.02, T:0.32
Consensus pattern (57 bp):
AAACTTCCAAAAATTCATTTTTAACCTCAAAACTTCCAAAAATTACATTTTACCCCA
Found at i:88719 original size:29 final size:28
Alignment explanation
Indices: 88596--88720 Score: 144
Period size: 29 Copynumber: 4.3 Consensus size: 28
88586 AAAATATATT
88596 TTTTACCCCAAAACTTCCAAAAATTCCA
1 TTTTACCCCAAAACTTCCAAAAATTCCA
* *
88624 TTTTTAACCTCAAAACTTCCAAAAATTACA
1 -TTTT-ACCCCAAAACTTCCAAAAATTCCA
* * *
88654 TTTTACCCCCAAACCTCCAAAAATTTCA
1 TTTTACCCCAAAACTTCCAAAAATTCCA
*
88682 TTTTAACCCCGAAAC-TCTCAAAAATTACCA
1 TTTT-ACCCCAAAACTTC-CAAAAATT-CCA
88712 TTTTACCCC
1 TTTTACCCC
88721 CGAATATCCA
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
28 26 0.31
29 30 0.36
30 28 0.33
ACGTcount: A:0.38, C:0.31, G:0.01, T:0.30
Consensus pattern (28 bp):
TTTTACCCCAAAACTTCCAAAAATTCCA
Found at i:88737 original size:30 final size:27
Alignment explanation
Indices: 88641--88734 Score: 109
Period size: 28 Copynumber: 3.3 Consensus size: 27
88631 CCTCAAAACT
88641 TCCAAAAATTACATTTTACCCCC-AAA
1 TCCAAAAATTACATTTTACCCCCGAAA
* *
88667 CCTCCAAAAATTTCATTTTAACCCCGAAA
1 --TCCAAAAATTACATTTTACCCCCGAAA
88696 CTCTCAAAAATTACCATTTTACCCCCGAATA
1 -TC-CAAAAATTA-CATTTTACCCCCGAA-A
88727 TCCAAAAA
1 TCCAAAAA
88735 ATTCTGTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
28 24 0.41
29 17 0.29
30 16 0.28
31 1 0.02
ACGTcount: A:0.40, C:0.31, G:0.02, T:0.27
Consensus pattern (27 bp):
TCCAAAAATTACATTTTACCCCCGAAA
Found at i:88851 original size:28 final size:28
Alignment explanation
Indices: 88818--88879 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
88808 TCAAAATTTC
*
88818 CCAAAATTACCATTTTGCCCCCGAGAAT
1 CCAAAATTACCATTTTACCCCCGAGAAT
* *
88846 CCAAAATTACCATTTTACCCCCGGGTAT
1 CCAAAATTACCATTTTACCCCCGAGAAT
88874 CCAAAA
1 CCAAAA
88880 AGTCTCATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.34, C:0.32, G:0.10, T:0.24
Consensus pattern (28 bp):
CCAAAATTACCATTTTACCCCCGAGAAT
Found at i:88853 original size:58 final size:59
Alignment explanation
Indices: 88611--88851 Score: 204
Period size: 58 Copynumber: 4.1 Consensus size: 59
88601 CCCCAAAACT
* * * * **
88611 TCCAAAAATTCCATTTTTAACCTCAAAACTTCCAAAAATTA-CATTTTACCCCCAAACC
1 TCCAAAAATTTCATTTTAAACCTCAAAATTTCCAAAAATTACCATTTTACCCCCGAATA
* * *
88669 TCCAAAAATTTCATTTT-AACCCCGAAA-CTCTCAAAAATTACCATTTTACCCCCGAATA
1 TCCAAAAATTTCATTTTAAACCTCAAAATTTC-CAAAAATTACCATTTTACCCCCGAATA
* * ** * ** * * * * *
88727 TCCAAAAAATTCTGTTTTTTATCTCAATTTTTCTAAAAATTACCGTTTTACCCTCGGATG
1 TCCAAAAATTTC-ATTTTAAACCTCAAAATTTCCAAAAATTACCATTTTACCCCCGAATA
* * *
88787 T-CTAAAATTTCATTTTAAACCTCAAAATTTCCCAAAATTACCATTTTGCCCCCGAGA-A
1 TCCAAAAATTTCATTTTAAACCTCAAAATTTCCAAAAATTACCATTTTACCCCCGA-ATA
88845 TCCAAAA
1 TCCAAAA
88852 TTACCATTTT
Statistics
Matches: 139, Mismatches: 37, Indels: 13
0.74 0.20 0.07
Matches are distributed among these distances:
56 2 0.01
57 17 0.12
58 74 0.53
59 17 0.12
60 27 0.19
61 2 0.01
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (59 bp):
TCCAAAAATTTCATTTTAAACCTCAAAATTTCCAAAAATTACCATTTTACCCCCGAATA
Found at i:92115 original size:12 final size:13
Alignment explanation
Indices: 92089--92123 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
92079 ATATTTTATT
92089 ATTTTTAAAACTA
1 ATTTTTAAAACTA
92102 ATTTTTAAAA-TA
1 ATTTTTAAAACTA
*
92114 ATATTTAAAA
1 ATTTTTAAAA
92124 ATATATGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTTTAAAACTA
Found at i:92307 original size:11 final size:11
Alignment explanation
Indices: 92293--92318 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
92283 ATTAATATGA
92293 AAATAATTTTT
1 AAATAATTTTT
92304 AAATAATTTTT
1 AAATAATTTTT
92315 AAAT
1 AAAT
92319 TTTAAACTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATAATTTTT
Found at i:97292 original size:21 final size:21
Alignment explanation
Indices: 97266--97307 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
97256 CACAATTAAG
*
97266 TTTATTTTGGTATTTATATTT
1 TTTATTTTGGTATTTAAATTT
*
97287 TTTATTTTGGTTTTTAAATTT
1 TTTATTTTGGTATTTAAATTT
97308 GATAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (21 bp):
TTTATTTTGGTATTTAAATTT
Found at i:97558 original size:12 final size:11
Alignment explanation
Indices: 97537--97570 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
97527 AGATTTTATG
97537 ATTTTTTAATT
1 ATTTTTTAATT
97548 ATTTATTTAATT
1 ATTT-TTTAATT
*
97560 ATTTGTTAATT
1 ATTTTTTAATT
97571 CAACAGTCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (11 bp):
ATTTTTTAATT
Found at i:98230 original size:22 final size:23
Alignment explanation
Indices: 98178--98224 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 23
98168 TTTTATGCGT
98178 TTAATTTTTATTTAATTATTATAA
1 TTAA-TTTTATTTAATTATTATAA
98202 TTAATTTT-TTTAATTTATT-TAA
1 TTAATTTTATTTAA-TTATTATAA
98224 T
1 T
98225 ATATTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 9 0.41
23 9 0.41
24 4 0.18
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TTAATTTTATTTAATTATTATAA
Found at i:98262 original size:28 final size:28
Alignment explanation
Indices: 98211--98264 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
98201 ATTAATTTTT
* *
98211 TTAATTTATTTAATATATTTAAAATATA
1 TTAATTTATTTAACATATTAAAAATATA
98239 TTAATTTATTTAACA-ATTCAAAAATA
1 TTAATTTATTTAACATATT-AAAAATA
98265 AAATAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (28 bp):
TTAATTTATTTAACATATTAAAAATATA
Found at i:105331 original size:37 final size:37
Alignment explanation
Indices: 105288--105369 Score: 164
Period size: 37 Copynumber: 2.2 Consensus size: 37
105278 ACAAAATGGA
105288 AGGCAGCCACAAACTTTGATCATGAACTCTAAAATAT
1 AGGCAGCCACAAACTTTGATCATGAACTCTAAAATAT
105325 AGGCAGCCACAAACTTTGATCATGAACTCTAAAATAT
1 AGGCAGCCACAAACTTTGATCATGAACTCTAAAATAT
105362 AGGCAGCC
1 AGGCAGCC
105370 TTTTTTTTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (37 bp):
AGGCAGCCACAAACTTTGATCATGAACTCTAAAATAT
Found at i:113497 original size:31 final size:31
Alignment explanation
Indices: 113449--113521 Score: 103
Period size: 31 Copynumber: 2.3 Consensus size: 31
113439 TTTACATAAC
113449 TTTAATTTACTGTGTAATTGTATATATATAAAT
1 TTTAATTTA-TGTGTAATTGTATATATA-AAAT
*
113482 TTTAATTT-TGTGTAATTTTATATATAAAAT
1 TTTAATTTATGTGTAATTGTATATATAAAAT
*
113512 TTTGATTTAT
1 TTTAATTTAT
113522 TCAATTCTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 11 0.30
31 18 0.49
33 8 0.22
ACGTcount: A:0.34, C:0.01, G:0.08, T:0.56
Consensus pattern (31 bp):
TTTAATTTATGTGTAATTGTATATATAAAAT
Done.