Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168472.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_71, 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: 128422
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 2
Found at i:3996 original size:193 final size:192
Alignment explanation
Indices: 3668--4039 Score: 665
Period size: 193 Copynumber: 1.9 Consensus size: 192
3658 TTTATTTATT
*
3668 AAAAATTATTCTCGAGAAAATAAATCAAAGCCTTTTTATTGAAATAATTCTTAAAATGTTCCAGT
1 AAAAATTATTCTCGAGAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTCCAGT
*
3733 ACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCAGAAT
66 ACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAAAGATTTCTTAAAGCATCTCTACTCAGAAT
* *
3798 ACTTTTAGAATCTCATCTTTGGAGG-CTCGAATTTATTTTTCGTAAGAAAATGTCATGTTAAA
131 ACTTTTAGAATCTCATCTTTGGAGGTCT-AAATTTACTTTTCGTAAGAAAATGTCATGTTAAA
*
3860 AAAAATTATTCTCGAGAAAAATAAATTAAAACCTTTTTATTGAAATAATTCTTAAAATGTTCCAG
1 AAAAATTATTCTCGAG-AAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTCCAG
*
3925 TACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAAAGATTTCTTAAAGCATCTCTACTCGGAA
65 TACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAAAGATTTCTTAAAGCATCTCTACTCAGAA
3990 TACTTTTAGAATCTCATCTTTGGAGGTCTAAATTTACTTTTCGTAAGAAA
130 TACTTTTAGAATCTCATCTTTGGAGGTCTAAATTTACTTTTCGTAAGAAA
4040 TTATGTCACG
Statistics
Matches: 172, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
192 16 0.09
193 154 0.90
194 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (192 bp):
AAAAATTATTCTCGAGAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTCCAGT
ACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAAAGATTTCTTAAAGCATCTCTACTCAGAAT
ACTTTTAGAATCTCATCTTTGGAGGTCTAAATTTACTTTTCGTAAGAAAATGTCATGTTAAA
Found at i:4121 original size:12 final size:12
Alignment explanation
Indices: 4104--4133 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4094 TCATTCAAAA
4104 ATTTTATTAATT
1 ATTTTATTAATT
4116 ATTTTATTAATT
1 ATTTTATTAATT
*
4128 TTTTTA
1 ATTTTA
4134 ATTTTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTTTATTAATT
Found at i:4864 original size:209 final size:204
Alignment explanation
Indices: 4180--4979 Score: 1141
Period size: 209 Copynumber: 3.9 Consensus size: 204
4170 TATATTGGAG
* * * * *
4180 ATTTTCTATAAATATTCCAATACGCTGGTAATATTTTACAAAAAATCTTCTCACCTAGAGATTTC
1 ATTTTTTATAAATACTCAAATACGCTGGTAGTA-CTTA-AAAAAATCTTCTCACCTAGAGATTTC
* * * * * ** * *
4245 TTAAAGCATCTCTACTCGGAATACTTTTAGAATCCCATCATTAGAT-TAAATTT-CTTTTCTTCC
64 GT-AGGCATCACTACTCGGAATACCTTT-GAATCTCATCATCGGATAAAAATTTCCTTTTC-TCT
*
4308 TA-TTTTTATTACTTAT-TTTTAATTTATTAATCAATTTTTATTTATTATTTTTAAAAAAAATCT
126 TATTTTTTATTAGTTATATTTTAATTTATTAATCAATTTTTATTTATTATTTTTAAAAAAAATCT
4371 TTACTGTATTGAAA
191 TTACTGTATTGAAA
4385 ATTTTTTATAAATACTCAAATACGCTGGTAGTACTTAAAAAAAATCTTCTCACCTAGAGATTTCG
1 ATTTTTTATAAATACTCAAATACGCTGGTAGTACTT-AAAAAAATCTTCTCACCTAGAGATTTCG
* *
4450 TAGGCATCACTACTCGAAATACCTTTGAATCTCATCGTCGGATAAAAATTTCCTTTTCTCTTATT
65 TAGGCATCACTACTCGGAATACCTTTGAATCTCATCATCGGATAAAAATTTCCTTTTCTCTTATT
*
4515 TTTTATTAGTTATATTTTTAATTTATTAATAAATTTTTATTTATTA-TTTT-AAAAAAATCTTTA
130 TTTTATTAGTTATA-TTTTAATTTATTAATCAATTTTTATTTATTATTTTTAAAAAAAATCTTTA
4578 CTGTATTGAAA
194 CTGTATTGAAA
* *
4589 ATTTTTTATAAATACTCCAATACGTTGGTAGTACTTAAAAAAATCTTCTCACCTAGAGATTTCGT
1 ATTTTTTATAAATACTCAAATACGCTGGTAGTACTTAAAAAAATCTTCTCACCTAGAGATTTCGT
* * *
4654 AGGCATCATTACTCGGAATACCTCTGAATCTCATCATCGGATAAAAATTTCCTTTTATCTTATTT
66 AGGCATCACTACTCGGAATACCTTTGAATCTCATCATCGGATAAAAATTTCCTTTTCTCTTATTT
* *
4719 TTTATTAGTTATATTTTAATTTATTAATCAATATTTATTTATTATTTTTTAAAAAAAGAAAATTT
131 TTTATTAGTTATATTTTAATTTATTAATCAATTTTTATTTATTA-TTTTT---AAAA-AAAATCT
4784 TTACTGTATTGAAA
191 TTACTGTATTGAAA
4798 ATTTTTTATAAATACTCAAATACGCTGGTAGTACTTAAAAAAATCTTCTCACCTAGAGATTTCGT
1 ATTTTTTATAAATACTCAAATACGCTGGTAGTACTTAAAAAAATCTTCTCACCTAGAGATTTCGT
4863 AGGCATCACTACTCGGAATACCTTTGAATCTCATCATCGGATAAAAATTTCCTTTTCTCTTATTT
66 AGGCATCACTACTCGGAATACCTTTGAATCTCATCATCGGATAAAAATTTCCTTTTCTCTTATTT
* ** *
4928 TTTATTAGTT-TAGTATT-A-TTATTAAGTTTATTTTTATATTATTGTTTTTAAA
131 TTTATTAGTTATA-TTTTAATTTATTAA-TCAATTTTTAT-TTATTATTTTTAAA
4980 GTTTATTTTA
Statistics
Matches: 541, Mismatches: 38, Indels: 32
0.89 0.06 0.05
Matches are distributed among these distances:
202 42 0.08
203 133 0.25
204 110 0.20
205 37 0.07
206 30 0.06
207 7 0.01
208 19 0.04
209 163 0.30
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (204 bp):
ATTTTTTATAAATACTCAAATACGCTGGTAGTACTTAAAAAAATCTTCTCACCTAGAGATTTCGT
AGGCATCACTACTCGGAATACCTTTGAATCTCATCATCGGATAAAAATTTCCTTTTCTCTTATTT
TTTATTAGTTATATTTTAATTTATTAATCAATTTTTATTTATTATTTTTAAAAAAAATCTTTACT
GTATTGAAA
Found at i:5764 original size:18 final size:20
Alignment explanation
Indices: 5733--5770 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
5723 GGGACTGTTT
*
5733 TTTTTTTGTGTTTTTGCAGA
1 TTTTTTTGTGTTTTTACAGA
5753 TTTTTTT-T-TTTTTACAGA
1 TTTTTTTGTGTTTTTACAGA
5771 AGCTGCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.13, C:0.05, G:0.13, T:0.68
Consensus pattern (20 bp):
TTTTTTTGTGTTTTTACAGA
Found at i:5908 original size:21 final size:22
Alignment explanation
Indices: 5864--5908 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
5854 ATAGAGCTTG
5864 TTGAGATTCAAATCCCAGATTTT
1 TTGAGATTCAAATCCCA-ATTTT
* *
5887 TTGAGATTCGAATCTC-ATTTT
1 TTGAGATTCAAATCCCAATTTT
5908 T
1 T
5909 CAACTGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
23 14 0.70
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (22 bp):
TTGAGATTCAAATCCCAATTTT
Found at i:6049 original size:11 final size:11
Alignment explanation
Indices: 6028--6062 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
6018 TTTCTGTTTC
6028 TTTTGTTTGTT
1 TTTTGTTTGTT
6039 TATTT-TTTGTT
1 T-TTTGTTTGTT
6050 TTTTGTTTGTT
1 TTTTGTTTGTT
6061 TT
1 TT
6063 GTTAAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.14
11 16 0.73
12 3 0.14
ACGTcount: A:0.03, C:0.00, G:0.14, T:0.83
Consensus pattern (11 bp):
TTTTGTTTGTT
Found at i:6758 original size:8 final size:8
Alignment explanation
Indices: 6745--6864 Score: 66
Period size: 8 Copynumber: 14.9 Consensus size: 8
6735 GGAGTTATGT
6745 AGGTTTTA
1 AGGTTTTA
6753 AGGTTTTA
1 AGGTTTTA
* *
6761 GGGTTTCA
1 AGGTTTTA
* *
6769 TGATTTTA
1 AGGTTTTA
*
6777 GGGTTTT-
1 AGGTTTTA
6784 AGGTTTTTA
1 AGG-TTTTA
* *
6793 ACGCTTT-
1 AGGTTTTA
*
6800 GGGATTTTA
1 AGG-TTTTA
*
6809 AGGTTTTT
1 AGGTTTTA
6817 AGAGTTTTA
1 AG-GTTTTA
*
6826 GGGTTTT-
1 AGGTTTTA
*
6833 AGGATATTA
1 AGG-TTTTA
*
6842 GGGTTTTA
1 AGGTTTTA
6850 AGGTTTTA
1 AGGTTTTA
*
6858 GGGTTTT
1 AGGTTTT
6865 TTTAATCATT
Statistics
Matches: 82, Mismatches: 23, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
7 5 0.06
8 65 0.79
9 12 0.15
ACGTcount: A:0.19, C:0.03, G:0.28, T:0.50
Consensus pattern (8 bp):
AGGTTTTA
Found at i:6791 original size:16 final size:15
Alignment explanation
Indices: 6746--6864 Score: 94
Period size: 16 Copynumber: 7.4 Consensus size: 15
6736 GAGTTATGTA
6746 GGTTTTAAGGTTTTAG
1 GGTTTT-AGGTTTTAG
* *
6762 GGTTTCATGATTTTAG
1 GGTTTTA-GGTTTTAG
*
6778 GGTTTTAGGTTTTTAA
1 GGTTTTAGG-TTTTAG
* * *
6794 CGCTTTGGGATTTTAAG
1 GGTTTTAGG-TTTT-AG
*
6811 GTTTTTAGAGTTTTAG
1 GGTTTTAG-GTTTTAG
*
6827 GGTTTTAGGATATTAG
1 GGTTTTAGG-TTTTAG
6843 GGTTTTAAGGTTTTAG
1 GGTTTT-AGGTTTTAG
6859 GGTTTT
1 GGTTTT
6865 TTTAATCATT
Statistics
Matches: 80, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
15 3 0.04
16 64 0.80
17 12 0.15
18 1 0.01
ACGTcount: A:0.18, C:0.03, G:0.29, T:0.50
Consensus pattern (15 bp):
GGTTTTAGGTTTTAG
Found at i:8931 original size:3 final size:3
Alignment explanation
Indices: 8923--8981 Score: 82
Period size: 3 Copynumber: 19.3 Consensus size: 3
8913 TTTGTTTTAT
*
8923 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
* *
8969 AAA ATA AAA ATA A
1 ATA ATA ATA ATA A
8982 ATAAAATTGA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:9831 original size:5 final size:5
Alignment explanation
Indices: 9821--9870 Score: 66
Period size: 5 Copynumber: 9.8 Consensus size: 5
9811 ACTTCAGGTA
*
9821 TTTAT TTTA- TTTATT TTTAT TTTAT TTTAT TTTAT TTATAT ATTAT TTTA
1 TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT TT-TAT TTTAT TTTA
9871 ATATATATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
4 4 0.10
5 28 0.70
6 8 0.20
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:9840 original size:10 final size:10
Alignment explanation
Indices: 9819--9884 Score: 55
Period size: 10 Copynumber: 6.3 Consensus size: 10
9809 GGACTTCAGG
9819 TATTTA-TTT
1 TATTTATTTT
9828 TATTTATTTT
1 TATTTATTTT
9838 TATTT-TATTT
1 TATTTAT-TTT
*
9848 TATTTTATTTA
1 TA-TTTATTTT
9859 TATATTATTTT
1 TAT-TTATTTT
*
9870 AATATATATTTT
1 --TATTTATTTT
9882 TAT
1 TAT
9885 AAAAAAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
9 7 0.15
10 17 0.36
11 13 0.28
12 7 0.15
13 3 0.06
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TATTTATTTT
Found at i:9875 original size:15 final size:16
Alignment explanation
Indices: 9847--9879 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9837 TTATTTTATT
*
9847 TTATTTTATTTATATA
1 TTATTTTATATATATA
9863 TTATTTTA-ATATATA
1 TTATTTTATATATATA
9878 TT
1 TT
9880 TTTATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTTTATATATATA
Found at i:11354 original size:18 final size:20
Alignment explanation
Indices: 11315--11378 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
11305 AGCTAGTTTG
11315 TATTTTATGTTTATTGTTAT
1 TATTTTATGTTTATTGTTAT
11335 TATTTTAT-TTTATT-TTAT
1 TATTTTATGTTTATTGTTAT
* *
11353 TATGTTATGGTTTTTTGTTGAT
1 TATTTTAT-GTTTATTGTT-AT
11375 TATT
1 TATT
11379 CATTTGTTCG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 11 0.30
19 6 0.16
20 13 0.35
21 2 0.05
22 5 0.14
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.70
Consensus pattern (20 bp):
TATTTTATGTTTATTGTTAT
Found at i:12294 original size:16 final size:16
Alignment explanation
Indices: 12264--12293 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12254 CAAGCTGAGC
12264 TTTTATTTGTATTTTA
1 TTTTATTTGTATTTTA
12280 TTTTATTTG-ATTTT
1 TTTTATTTGTATTTT
12294 TTTGTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (16 bp):
TTTTATTTGTATTTTA
Found at i:12659 original size:26 final size:25
Alignment explanation
Indices: 12614--12663 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
12604 TGAGATTCGT
12614 AAAAATTTTAAATGGTAAATTTCTA
1 AAAAATTTTAAATGGTAAATTTCTA
*
12639 AAAAATTTCTAAGTGAG-AAATTTCT
1 AAAAATTT-TAAATG-GTAAATTTCT
12664 CTAAATTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 8 0.36
26 13 0.59
27 1 0.05
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (25 bp):
AAAAATTTTAAATGGTAAATTTCTA
Found at i:14717 original size:15 final size:15
Alignment explanation
Indices: 14697--14726 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14687 CCCAAAAAGA
14697 CATATATTGGTTAAG
1 CATATATTGGTTAAG
14712 CATATATTGGTTAAG
1 CATATATTGGTTAAG
14727 TATCTTGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (15 bp):
CATATATTGGTTAAG
Found at i:23192 original size:2 final size:2
Alignment explanation
Indices: 23185--23212 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23175 ATGAAGGATA
23185 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23213 TCTACTAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27086 original size:28 final size:28
Alignment explanation
Indices: 27046--27103 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
27036 CAATTGAAAG
* * * *
27046 TAAGTTTTGCATCCAAATGTGATAATCA
1 TAAGTCTTACATCAAAATGTGACAATCA
27074 TAAGTCTTACATCAAAATGTGACAATCA
1 TAAGTCTTACATCAAAATGTGACAATCA
27102 TA
1 TA
27104 TGCCTTCAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (28 bp):
TAAGTCTTACATCAAAATGTGACAATCA
Found at i:27534 original size:20 final size:20
Alignment explanation
Indices: 27498--27535 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27488 CTCATTGGGA
*
27498 TCATCTACTTTATCATCATT
1 TCATCTACTTTAACATCATT
27518 TCATC-ACTTTAAACATCA
1 TCATCTACTTT-AACATCA
27536 AGATCACTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (20 bp):
TCATCTACTTTAACATCATT
Found at i:34937 original size:36 final size:35
Alignment explanation
Indices: 34874--34942 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
34864 ATATATAAAC
* *
34874 CAAATGTTTTCTTAGCATAAATATACAACTGACAG
1 CAAATGTTTTCTTAGCATAAACATACAAATGACAG
* * *
34909 CAAATGTTTTTTTGGGCATAAACCTACAAATGAC
1 CAAATGTTTTCTT-AGCATAAACATACAAATGAC
34943 TACACATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 12 0.43
36 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (35 bp):
CAAATGTTTTCTTAGCATAAACATACAAATGACAG
Found at i:38453 original size:153 final size:154
Alignment explanation
Indices: 38183--38481 Score: 453
Period size: 153 Copynumber: 1.9 Consensus size: 154
38173 TTTAAAAATA
* * * *
38183 TTAAAAATGATCAACATAAATACCCCTATGAATTTTAAGAAATAACAAATTTACCTTTAAATTTT
1 TTAAAAATGATCAACATAAATACCCCTATAAATTTTAAGAAACAACAAATTTACATTTAAATTTC
*
38248 TAGCATTTTTTATTTATTTAATAAAGATTATTTGTCATTAAATATATAGC-TTTTATT-AGTTAG
66 TAACATTTTTTATTTATTTAATAAAGATTATTTGTCATTAAATATATAGCTTTTTATTCA-TTAG
38311 TTATTTAAATTTAAATCTAAAAGTG
130 TTATTTAAATTTAAATCTAAAAGTG
* * * *
38336 TTAAAAATGAAT-AACATAAATGCCCTTATAAATTTTAA-AAAGCAACAAATTTATATTTCAATT
1 TTAAAAATG-ATCAACATAAATACCCCTATAAATTTTAAGAAA-CAACAAATTTACATTTAAATT
*
38399 TCTAACATTTTTTATTTATTTAATAAGGATTATTTGTCATTAAATATATAGCTTTTTATTCATTA
64 TCTAACATTTTTTATTTATTTAATAAAGATTATTTGTCATTAAATATATAGCTTTTTATTCATTA
38464 GTTATTTAAATTTAAATC
129 GTTATTTAAATTTAAATC
38482 AATTAAAAAT
Statistics
Matches: 132, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
152 3 0.02
153 98 0.74
154 30 0.23
155 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.44
Consensus pattern (154 bp):
TTAAAAATGATCAACATAAATACCCCTATAAATTTTAAGAAACAACAAATTTACATTTAAATTTC
TAACATTTTTTATTTATTTAATAAAGATTATTTGTCATTAAATATATAGCTTTTTATTCATTAGT
TATTTAAATTTAAATCTAAAAGTG
Found at i:38974 original size:23 final size:23
Alignment explanation
Indices: 38927--38977 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
38917 AATTTAAATT
*
38927 AATTAAAATTAAAGTTCATACAA
1 AATTAAAATTAAAGTTCATAAAA
38950 AATTATAAATTAAA-TT-ATCAAAA
1 AATTA-AAATTAAAGTTCAT-AAAA
38973 AATTA
1 AATTA
38978 GTCAAAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 2 0.08
23 15 0.60
24 8 0.32
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (23 bp):
AATTAAAATTAAAGTTCATAAAA
Found at i:41144 original size:22 final size:22
Alignment explanation
Indices: 41100--41144 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
41090 GACAACTTAA
**
41100 TAGTAAATAAATAATAATTTAG
1 TAGTAAATAAATAATAAGATAG
*
41122 TAGTAAATAATTAATAAGATAG
1 TAGTAAATAAATAATAAGATAG
41144 T
1 T
41145 TGTATGCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (22 bp):
TAGTAAATAAATAATAAGATAG
Found at i:41236 original size:21 final size:21
Alignment explanation
Indices: 41157--41243 Score: 86
Period size: 22 Copynumber: 4.0 Consensus size: 21
41147 TATGCTTGTG
*
41157 ATAACATAATAATAAATACAT
1 ATAACATAATAGTAAATACAT
* * *
41178 AATAATATAGTAATAAATAACAT
1 -ATAACATAATAGTAAAT-ACAT
*
41201 ATAACTTAATAGTAAAT-CAT
1 ATAACATAATAGTAAATACAT
*
41221 ATATACATAATTGTAAATACAT
1 ATA-ACATAATAGTAAATACAT
41243 A
1 A
41244 ACAATATAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
20 6 0.11
21 12 0.22
22 32 0.59
23 4 0.07
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.32
Consensus pattern (21 bp):
ATAACATAATAGTAAATACAT
Found at i:41303 original size:65 final size:66
Alignment explanation
Indices: 41154--41303 Score: 157
Period size: 65 Copynumber: 2.3 Consensus size: 66
41144 TTGTATGCTT
* * * * *
41154 GTGATAACATAATAATAAATACATAATAATATAGTAATAAATAACATATAACTTAATAGTAAATC
1 GTGATAACATAATATTAAATACATAACAATATAGTAATAAATAACAGATAACTTAATAGAAAATA
41219 A
66 A
** *
41220 -T-ATATACATAAT-TGTAAATACATAACAATATAGTGGTAAATTAA-AGATAATTTAATA-AAA
1 GTGATA-ACATAATAT-TAAATACATAACAATATAGTAATAAA-TAACAGATAACTTAATAGAAA
41280 ATAA
63 ATAA
*
41284 GTGATAACTTAATATTAAAT
1 GTGATAACATAATATTAAAT
41304 CAATGTTAAC
Statistics
Matches: 69, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
64 8 0.12
65 54 0.78
66 7 0.10
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.33
Consensus pattern (66 bp):
GTGATAACATAATATTAAATACATAACAATATAGTAATAAATAACAGATAACTTAATAGAAAATA
A
Found at i:41313 original size:22 final size:22
Alignment explanation
Indices: 41287--41347 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
41277 AAAATAAGTG
*
41287 ATAACTTAATATTAAATCAATGT
1 ATAACTTAATAGTAAATCAAT-T
* *
41310 -TAACTTAGTAGTAAATTAATT
1 ATAACTTAATAGTAAATCAATT
*
41331 ATAATTTAATAGTAAAT
1 ATAACTTAATAGTAAAT
41348 AAAATTCAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 1 0.03
22 31 0.97
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCAATT
Found at i:41838 original size:22 final size:22
Alignment explanation
Indices: 41813--42472 Score: 170
Period size: 22 Copynumber: 29.9 Consensus size: 22
41803 AGTAACTTAG
*
41813 TAATAACTTAATAGTATATCAA
1 TAATAACTTAATAGTAAATCAA
* *
41835 TAATAATTTGATAGTAAAT-AA
1 TAATAACTTAATAGTAAATCAA
*
41856 CTAATAACTTAGTCA-TAAATCAA
1 -TAATAACTTAAT-AGTAAATCAA
41879 TAATAA-TATAATAGTAAATGC-A
1 TAATAACT-TAATAGTAAAT-CAA
*
41901 TAATAACTTAATGGTAAATCAA
1 TAATAACTTAATAGTAAATCAA
* * *
41923 TTATAACATAATTGTAAATGC-A
1 TAATAACTTAATAGTAAAT-CAA
* * *
41945 TAATAGCGTAATAGTAAATTAA
1 TAATAACTTAATAGTAAATCAA
* * *
41967 TGATAATTTTAA-A-AAAAT-AA
1 TAATAA-CTTAATAGTAAATCAA
* * * *
41987 GTGATAAGTTAATAGTTAATCAT
1 -TAATAACTTAATAGTAAATCAA
* * *
42010 TGATAATTTAGTAGTAAATCAA
1 TAATAACTTAATAGTAAATCAA
* * * *
42032 TAAAAATTTAGTAGTAAAT-TA
1 TAATAACTTAATAGTAAATCAA
* ***
42053 TAGATAACGTAATAGTAAATTTG
1 TA-ATAACTTAATAGTAAATCAA
** ** * *
42076 TTTTAGTTTAATAGTAATTAAA
1 TAATAACTTAATAGTAAATCAA
* *
42098 TTATAAACTTAGTAGTAAATC-A
1 TAAT-AACTTAATAGTAAATCAA
** *
42120 TAAATAACTTAGCAATAAATCAA
1 T-AATAACTTAATAGTAAATCAA
* * * * *
42143 TGATAAATTAGTAGTTAATCAC
1 TAATAACTTAATAGTAAATCAA
*
42165 TAA-AACTCAATAGTAAATCAA
1 TAATAACTTAATAGTAAATCAA
* * *
42186 TGATAA-TGTAGTAGCAAATGC-A
1 TAATAACT-TAATAGTAAAT-CAA
* * *
42208 TAA-CA-GTATATAGTAAATCAG
1 TAATAACTTA-ATAGTAAATCAA
* * * *
42229 TGATAATTTAATAGTAAATTAT
1 TAATAACTTAATAGTAAATCAA
* * * * *
42251 TGATAATTTAGTTGTAAATCAG
1 TAATAACTTAATAGTAAATCAA
* * * *
42273 TAATAACATCATAGTAAATTAC
1 TAATAACTTAATAGTAAATCAA
* * *
42295 TGATAACTTAGCTA-TAAATTC-G
1 TAATAACTTA-ATAGTAAA-TCAA
* * * * *
42317 TGATAATTTAGTTGTAAATTAGTTAA
1 TAATAACTTAATAGT-AA--A-TCAA
* * *
42343 TTATTAACTTCATAGGAAATC-A
1 -TAATAACTTAATAGTAAATCAA
* * *
42365 TCAATAACTTCATAGTAAATTAG
1 T-AATAACTTAATAGTAAATCAA
* * * *
42388 TAAAAACTTTATAATAAAT-TA
1 TAATAACTTAATAGTAAATCAA
* * *
42409 TCTATAACTTAATAGTAAATTAT
1 T-AATAACTTAATAGTAAATCAA
* * *
42432 TAATAATTTAATAATAAATCAT
1 TAATAACTTAATAGTAAATCAA
* *
42454 TTATAACTTAGTAGTAAAT
1 TAATAACTTAATAGTAAAT
42473 TATCTATAAC
Statistics
Matches: 462, Mismatches: 137, Indels: 78
0.68 0.20 0.12
Matches are distributed among these distances:
20 9 0.02
21 48 0.10
22 354 0.77
23 38 0.08
24 1 0.00
25 2 0.00
26 2 0.00
27 8 0.02
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (22 bp):
TAATAACTTAATAGTAAATCAA
Found at i:42450 original size:66 final size:66
Alignment explanation
Indices: 42347--42520 Score: 170
Period size: 66 Copynumber: 2.6 Consensus size: 66
42337 AGTTAATTAT
* * * * * * *
42347 TAACTTCATAGGAAATCATCAATAACTTCATAGTAAATTAGTAAAAACTTTA-TAATAAATTATC
1 TAACTTAATAGTAAATTATTAATAATTTAATAGTAAATCAGTAAAAAC-TTAGTAATAAATTATC
42411 TA
65 TA
* * * * *
42413 TAACTTAATAGTAAATTATTAATAATTTAATAATAAATCATTTATAACTTAGTAGTAAATTATCT
1 TAACTTAATAGTAAATTATTAATAATTTAATAGTAAATCAGTAAAAACTTAGTAATAAATTATCT
42478 A
66 A
* * * * * *
42479 TAACTGAGTAATAAATTAATGATAATTTAGTAGTAAATCAGT
1 TAACTTAATAGTAAATTATTAATAATTTAATAGTAAATCAGT
42521 GATAAGATAG
Statistics
Matches: 87, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
65 3 0.03
66 84 0.97
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (66 bp):
TAACTTAATAGTAAATTATTAATAATTTAATAGTAAATCAGTAAAAACTTAGTAATAAATTATCT
A
Found at i:42480 original size:22 final size:21
Alignment explanation
Indices: 42368--42516 Score: 104
Period size: 22 Copynumber: 6.8 Consensus size: 21
42358 GAAATCATCA
*
42368 ATAACTTCA-TAGTAAATTAGTA
1 ATAACTT-AGTAGTAAATTA-TT
* *
42390 AAAACTTTA-TAATAAATTATCT
1 ATAAC-TTAGTAGTAAATTAT-T
*
42412 ATAACTTAATAGTAAATTATT
1 ATAACTTAGTAGTAAATTATT
* * * *
42433 AATAATTTAATAATAAATCATTT
1 -ATAACTTAGTAGTAAATTA-TT
42456 ATAACTTAGTAGTAAATTATCT
1 ATAACTTAGTAGTAAATTAT-T
* * *
42478 ATAACTGAGTAATAAATTAATG
1 ATAACTTAGTAGTAAATT-ATT
*
42500 ATAATTTAGTAGTAAAT
1 ATAACTTAGTAGTAAAT
42517 CAGTGATAAG
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
21 6 0.06
22 90 0.88
23 6 0.06
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.40
Consensus pattern (21 bp):
ATAACTTAGTAGTAAATTATT
Found at i:42491 original size:44 final size:44
Alignment explanation
Indices: 42368--42516 Score: 149
Period size: 44 Copynumber: 3.4 Consensus size: 44
42358 GAAATCATCA
* * ** *
42368 ATAACTTCA-TAGTAAATTAGTAAAAACTTTATAATAAATTATCT
1 ATAACTT-AGTAGTAAATTATTAATAACTGAATAATAAATTATTT
* * * *
42412 ATAACTTAATAGTAAATTATTAATAATTTAATAATAAATCATTT
1 ATAACTTAGTAGTAAATTATTAATAACTGAATAATAAATTATTT
* * *
42456 ATAACTTAGTAGTAAATTATCT-ATAACTGAGTAATAAATTAATG
1 ATAACTTAGTAGTAAATTAT-TAATAACTGAATAATAAATTATTT
*
42500 ATAATTTAGTAGTAAAT
1 ATAACTTAGTAGTAAAT
42517 CAGTGATAAG
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
43 1 0.01
44 87 0.98
45 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.40
Consensus pattern (44 bp):
ATAACTTAGTAGTAAATTATTAATAACTGAATAATAAATTATTT
Found at i:42523 original size:22 final size:21
Alignment explanation
Indices: 42434--42549 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 21
42424 TAAATTATTA
* * *
42434 ATAATTTAATAATAAATCATTT
1 ATAACTTAGTAATAAATCA-TG
* * *
42456 ATAACTTAGTAGTAAATTATCT
1 ATAACTTAGTAATAAATCAT-G
* *
42478 ATAACTGAGTAATAAATTAATG
1 ATAACTTAGTAATAAA-TCATG
* *
42500 ATAATTTAGTAGTAAATCAGTG
1 ATAACTTAGTAATAAATCA-TG
** *
42522 ATAAGATAGTAAT-AATAATCG
1 ATAACTTAGTAATAAATCAT-G
42543 ATAACTT
1 ATAACTT
42550 CTTTTGTTAA
Statistics
Matches: 72, Mismatches: 18, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
20 1 0.01
21 13 0.18
22 55 0.76
23 3 0.04
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (21 bp):
ATAACTTAGTAATAAATCATG
Found at i:42818 original size:23 final size:22
Alignment explanation
Indices: 42792--42870 Score: 88
Period size: 22 Copynumber: 3.5 Consensus size: 22
42782 GTTAATCATA
42792 AATAACTTAGTAGTAATTCAATT
1 AATAACTTAGTAGTAATT-AATT
*
42815 AATAACTTAGTAGTAAATAATT
1 AATAACTTAGTAGTAATTAATT
* *
42837 GATAACTTAATAGCTAATT-ATT
1 AATAACTTAGTAG-TAATTAATT
* *
42859 AAAAAGTTAGTA
1 AATAACTTAGTA
42871 ATAGATCAGT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 26 0.55
23 21 0.45
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (22 bp):
AATAACTTAGTAGTAATTAATT
Found at i:42841 original size:22 final size:23
Alignment explanation
Indices: 42792--42845 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
42782 GTTAATCATA
*
42792 AATAACTTAGTAGTAATTCAATT
1 AATAACTTAGTAGTAAATCAATT
42815 AATAACTTAGTAGTAAAT-AATT
1 AATAACTTAGTAGTAAATCAATT
*
42837 GATAACTTA
1 AATAACTTA
42846 ATAGCTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.37
Consensus pattern (23 bp):
AATAACTTAGTAGTAAATCAATT
Found at i:42924 original size:22 final size:22
Alignment explanation
Indices: 42899--42949 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
42889 GTAAAATGCA
* *
42899 TAATAATATAATAGTAAATTAC
1 TAATAATATAATAATAAATCAC
*
42921 TAATAATATACTAATAAATCAC
1 TAATAATATAATAATAAATCAC
*
42943 TTATAAT
1 TAATAAT
42950 TTAGTTGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (22 bp):
TAATAATATAATAATAAATCAC
Found at i:43024 original size:22 final size:22
Alignment explanation
Indices: 42999--43116 Score: 107
Period size: 22 Copynumber: 5.4 Consensus size: 22
42989 TTAATCATTG
*
42999 ATAATTTTATAGTAAATTATTA
1 ATAACTTTATAGTAAATTATTA
* *
43021 ATAACTTCATAGAAAATTAGTT-
1 ATAACTTTATAGTAAATTA-TTA
* *
43043 ATAACTTTATAATAAATTATCA
1 ATAACTTTATAGTAAATTATTA
* *
43065 ATAAC-TTAGTAGTAAATCATTC
1 ATAACTTTA-TAGTAAATTATTA
* **
43087 ATAACTTAATAGTAAATCCTTA
1 ATAACTTTATAGTAAATTATTA
43109 ATAA-TTTA
1 ATAACTTTA
43117 ACAATAAATA
Statistics
Matches: 77, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
21 7 0.09
22 66 0.86
23 4 0.05
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (22 bp):
ATAACTTTATAGTAAATTATTA
Found at i:43112 original size:44 final size:43
Alignment explanation
Indices: 42986--43112 Score: 130
Period size: 44 Copynumber: 2.9 Consensus size: 43
42976 AGTAGCAAAT
* *
42986 TAGTTAATCATTGATAATTTTATAGTAAATTATTAATAACTTCA
1 TAGTAAATCATT-ATAACTTTATAGTAAATTATTAATAACTTCA
* * * *
43030 TAGAAAATTAGTTATAACTTTATAATAAATTATCAATAACTT-A
1 TAGTAAATCA-TTATAACTTTATAGTAAATTATTAATAACTTCA
* **
43073 GTAGTAAATCATTCATAACTTAATAGTAAATCCTTAATAA
1 -TAGTAAATCATT-ATAACTTTATAGTAAATTATTAATAA
43113 TTTAACAATA
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
43 3 0.04
44 62 0.93
45 2 0.03
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (43 bp):
TAGTAAATCATTATAACTTTATAGTAAATTATTAATAACTTCA
Found at i:43117 original size:22 final size:22
Alignment explanation
Indices: 42986--43149 Score: 105
Period size: 22 Copynumber: 7.5 Consensus size: 22
42976 AGTAGCAAAT
* * * *
42986 TAGTTAATCATTGATAATTTTA
1 TAGTAAATCATTAATAACTTAA
* *
43008 TAGTAAATTATTAATAACTTCA
1 TAGTAAATCATTAATAACTTAA
* * *
43030 TAGAAAATTAGTT-ATAACTTTA
1 TAGTAAATCA-TTAATAACTTAA
* * * *
43052 TAATAAATTATCAATAACTTAG
1 TAGTAAATCATTAATAACTTAA
*
43074 TAGTAAATCATTCATAACTTAA
1 TAGTAAATCATTAATAACTTAA
* *
43096 TAGTAAATCCTTAATAATTTAA
1 TAGTAAATCATTAATAACTTAA
* * * * * *
43118 CAATAAATAACTAATAACATAG
1 TAGTAAATCATTAATAACTTAA
*
43140 TAATAAATCA
1 TAGTAAATCA
43150 GTGATTACTT
Statistics
Matches: 110, Mismatches: 30, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
21 1 0.01
22 107 0.97
23 2 0.02
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (22 bp):
TAGTAAATCATTAATAACTTAA
Found at i:49369 original size:18 final size:18
Alignment explanation
Indices: 49346--49387 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
49336 CCTATTTATA
*
49346 TTATTACTTA-TTCTTAAT
1 TTATTAATTAGTT-TTAAT
*
49364 TTATTAATTAGTTTTTAT
1 TTATTAATTAGTTTTAAT
49382 TTATTA
1 TTATTA
49388 TATTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (18 bp):
TTATTAATTAGTTTTAAT
Found at i:49829 original size:25 final size:25
Alignment explanation
Indices: 49791--49840 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
49781 ACAGTTTAGA
49791 CGCAGTCCGATTGGTTCGAATTGGG
1 CGCAGTCCGATTGGTTCGAATTGGG
* *
49816 CGCAGTCCGGTTGGTTCGATTTGGG
1 CGCAGTCCGATTGGTTCGAATTGGG
49841 TCGGTTCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.12, C:0.20, G:0.38, T:0.30
Consensus pattern (25 bp):
CGCAGTCCGATTGGTTCGAATTGGG
Found at i:50718 original size:8 final size:8
Alignment explanation
Indices: 50705--50780 Score: 59
Period size: 9 Copynumber: 9.4 Consensus size: 8
50695 GCCATCCCTC
50705 ATTTTTTT
1 ATTTTTTT
50713 A--TTTTT
1 ATTTTTTT
*
50719 -TTGTTTT
1 ATTTTTTT
50726 ATTTTTTT
1 ATTTTTTT
50734 ATTTTTTGT
1 ATTTTTT-T
**
50743 ATTTTGGT
1 ATTTTTTT
50751 ATTTTTTGT
1 ATTTTTT-T
*
50760 ATTTTGTAT
1 ATTTT-TTT
50769 ATTTTTTAT
1 ATTTTTT-T
50778 ATT
1 ATT
50781 ATGTATTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
6 5 0.09
7 4 0.08
8 21 0.40
9 22 0.42
10 1 0.02
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (8 bp):
ATTTTTTT
Found at i:50727 original size:13 final size:13
Alignment explanation
Indices: 50709--50738 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
50699 TCCCTCATTT
*
50709 TTTTATTTTTTTG
1 TTTTATTTTTTTA
50722 TTTTATTTTTTTA
1 TTTTATTTTTTTA
50735 TTTT
1 TTTT
50739 TTGTATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:50747 original size:17 final size:17
Alignment explanation
Indices: 50705--50780 Score: 71
Period size: 17 Copynumber: 4.2 Consensus size: 17
50695 GCCATCCCTC
50705 ATTTTTTTATTTTTTTGTTTT
1 ATTTTTTTA-TTTTTTG---T
50726 ATTTTTTTATTTTTTGT
1 ATTTTTTTATTTTTTGT
**
50743 ATTTTGGTATTTTTTGT
1 ATTTTTTTATTTTTTGT
* *
50760 ATTTTGTATATTTTTTAT
1 ATTTT-TTTATTTTTTGT
50778 ATT
1 ATT
50781 ATGTATTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
17 21 0.43
18 12 0.24
20 7 0.14
21 9 0.18
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (17 bp):
ATTTTTTTATTTTTTGT
Found at i:50756 original size:18 final size:17
Alignment explanation
Indices: 50735--50790 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
50725 TATTTTTTTA
50735 TTTTTTGTATTTTGGTA-
1 TTTTTTGTATTTT-GTAT
50752 TTTTTTGTATTTTGTAT
1 TTTTTTGTATTTTGTAT
* *
50769 ATTTTTTATATTATGTAT
1 -TTTTTTGTATTTTGTAT
50787 TTTT
1 TTTT
50791 GTTTAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 3 0.09
17 17 0.49
18 15 0.43
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.73
Consensus pattern (17 bp):
TTTTTTGTATTTTGTAT
Found at i:50790 original size:17 final size:16
Alignment explanation
Indices: 50705--50790 Score: 65
Period size: 17 Copynumber: 5.4 Consensus size: 16
50695 GCCATCCCTC
50705 ATTTTTTTAT-TTT-T
1 ATTTTTTTATATTTGT
* * *
50719 -TTGTTTTATTTTTTT
1 ATTTTTTTATATTTGT
50734 ATTTTTTGTAT-TTTGGT
1 ATTTTTT-TATATTT-GT
50751 ATTTTTTGTAT-TTTGT
1 ATTTTTT-TATATTTGT
50767 ATATTTTTTATATTATGT
1 AT-TTTTTTATATT-TGT
50785 ATTTTT
1 ATTTTT
50791 GTTTAATAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
13 8 0.13
14 3 0.05
15 1 0.02
16 15 0.25
17 29 0.48
18 5 0.08
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (16 bp):
ATTTTTTTATATTTGT
Found at i:50961 original size:10 final size:11
Alignment explanation
Indices: 50946--50974 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
50936 TAAAGAGATA
50946 TTTTTTTTCT-
1 TTTTTTTTCTC
50956 TTTTTTTTCTC
1 TTTTTTTTCTC
50967 TTTTTTTT
1 TTTTTTTT
50975 TTTAAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTCTC
Found at i:50963 original size:12 final size:12
Alignment explanation
Indices: 50946--50977 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
50936 TAAAGAGATA
50946 TTTTTTTTCTTT
1 TTTTTTTTCTTT
*
50958 TTTTTTCTCTTT
1 TTTTTTTTCTTT
50970 TTTTTTTT
1 TTTTTTTT
50978 AAACATAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:51242 original size:49 final size:49
Alignment explanation
Indices: 51068--51458 Score: 423
Period size: 49 Copynumber: 8.0 Consensus size: 49
51058 TAAAATATGA
** * * * *
51068 AAAAAGCTTATCTCAGCAGAGGCTTAGCAA-TTTCAAAATCTTATTTGG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATTTGG
* *
51116 AAAAAGCTCCTTTTAGCAGAGGCTCAACAACTTTAAAAAT-TCATTTGG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATTTGG
* *
51164 -AAAAGCTCCTCTCAGCAAAGCCTCAACAACTTTAAAAATCTCATTTGG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATTTGG
* * * * * *
51212 AGAAAGCACCTTTCAGCAAAGGCTCCACAACTTTGAAAATCTCATTT-G
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATTTGG
* * * *
51260 AAAAAACTCCTCTCAGCAGAGGCTCGACAACTTTAAAAATCTTATTTGAA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATTTG-G
* * * *
51310 AAAAAGGCTCATCTCAGCAGAGGCTTAACAACTTTAAAGATCTC-TTCTAG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATT-TGG
* * * *
51360 AAAAAGCTCCTCTCAGCAAAGGCTTAACAATTTTAAAAATCTCATTTGAA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATTTG-G
* * *
51410 AAAAGAGCTCTTATCAGCAGAGGCTTAACAACTTTAAAAATCTCATTTG
1 AAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATTTG
51459 TTTTTAAAAT
Statistics
Matches: 288, Mismatches: 45, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
47 35 0.12
48 79 0.27
49 83 0.29
50 18 0.06
51 73 0.25
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (49 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATTTGG
Found at i:51396 original size:100 final size:97
Alignment explanation
Indices: 51068--51458 Score: 439
Period size: 100 Copynumber: 4.0 Consensus size: 97
51058 TAAAATATGA
** * * * * * * *
51068 AAAAAGCTTATCTCAGCAGAGGCTTAGCAA-TTTCAAAATCTTATTTGGAAAAAGCTCCTTTTAG
1 AAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATCTCATTTGAAAAAAGCTCCTTTCAG
51132 CAGAGGCTCAACAACTTTAAAAAT-TCATTTG
66 CAGAGGCTCAACAACTTTAAAAATCTCATTTG
* * * * *
51163 GAAAAGCTCCTCTCAGCAAAGCCTCAACAACTTTAAAAATCTCATTTGGAGAAAGCACCTTTCAG
1 AAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATCTCATTTGAAAAAAGCTCCTTTCAG
* * *
51228 CAAAGGCTCCACAACTTTGAAAATCTCATTTG
66 CAGAGGCTCAACAACTTTAAAAATCTCATTTG
* * * * * *
51260 AAAAAACTCCTCTCAGCAGAGGCTCGACAACTTTAAAAATCTTATTTGAAAAAAAGGCTCATCTC
1 AAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATCTCATTTG-AAAAAA-GCTCCTTTC
* *
51325 AGCAGAGGCTTAACAACTTTAAAGATCTC-TTCTAG
64 AGCAGAGGCTCAACAACTTTAAAAATCTCATT-T-G
* *
51360 AAAAAGCTCCTCTCAGCAAAGGCTTAACAATTTTAAAAATCTCATTTGAAAAAAGAGCT-CTTAT
1 AAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATCTCATTTG-AAAAA-AGCTCCTT-T
*
51424 CAGCAGAGGCTTAACAACTTTAAAAATCTCATTTG
63 CAGCAGAGGCTCAACAACTTTAAAAATCTCATTTG
51459 TTTTTAAAAT
Statistics
Matches: 247, Mismatches: 40, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
95 23 0.09
96 50 0.20
97 49 0.20
98 6 0.02
99 33 0.13
100 83 0.34
101 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (97 bp):
AAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATCTCATTTGAAAAAAGCTCCTTTCAG
CAGAGGCTCAACAACTTTAAAAATCTCATTTG
Found at i:59494 original size:42 final size:42
Alignment explanation
Indices: 59448--59532 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
59438 TCTCAAATCG
*
59448 ACTGGCCTATTCTTGCTTTATGATTCTTGTTTGAATCCTGGT
1 ACTGGCCTATTCTTGCTTTATGATTCTTATTTGAATCCTGGT
59490 ACTGGCCTATTCTTGCTTTATGATTCTTATTTGAATCCTGGT
1 ACTGGCCTATTCTTGCTTTATGATTCTTATTTGAATCCTGGT
59532 A
1 A
59533 TTGTATGAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.16, C:0.19, G:0.18, T:0.47
Consensus pattern (42 bp):
ACTGGCCTATTCTTGCTTTATGATTCTTATTTGAATCCTGGT
Found at i:62134 original size:5 final size:5
Alignment explanation
Indices: 62119--62148 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
62109 TTTTGAGATT
62119 TTTTG -TTTG TTTTG TTTTG TTTTG TTTTG T
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG T
62149 ATTATACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
TTTTG
Found at i:63352 original size:12 final size:12
Alignment explanation
Indices: 63337--63374 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
63327 TTTTTTGGTA
*
63337 ATTTTATTAATT
1 ATTTTATTAAAT
63349 ATTTTATTAAAT
1 ATTTTATTAAAT
63361 ATTTT-TTAAA-
1 ATTTTATTAAAT
63371 ATTT
1 ATTT
63375 AAATTTAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 4 0.16
11 5 0.20
12 16 0.64
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATTTTATTAAAT
Found at i:64063 original size:25 final size:25
Alignment explanation
Indices: 64013--64064 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
64003 CGACAGTTCA
* *
64013 GGCGCGGTCCGGTTGGTTCGGCTTG
1 GGCGCGGTCCGATTGGTTCGACTTG
* *
64038 GGCGCGGTCTGATTGGTTCGATTTG
1 GGCGCGGTCCGATTGGTTCGACTTG
64063 GG
1 GG
64065 TCAGTTCAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.04, C:0.19, G:0.46, T:0.31
Consensus pattern (25 bp):
GGCGCGGTCCGATTGGTTCGACTTG
Found at i:64960 original size:24 final size:24
Alignment explanation
Indices: 64933--64979 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
64923 TTTTTTGTTC
* *
64933 TATTTTTTTATTTTTTGTATTTTG
1 TATTTTTTTATATTATGTATTTTG
64957 TATTTTTTTATATTATGTATTTT
1 TATTTTTTTATATTATGTATTTT
64980 TGTTTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (24 bp):
TATTTTTTTATATTATGTATTTTG
Found at i:64965 original size:17 final size:17
Alignment explanation
Indices: 64943--64980 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
64933 TATTTTTTTA
* *
64943 TTTTTTGTATTTTGTAT
1 TTTTTTATATTATGTAT
64960 TTTTTTATATTATGTAT
1 TTTTTTATATTATGTAT
64977 TTTT
1 TTTT
64981 GTTTAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (17 bp):
TTTTTTATATTATGTAT
Found at i:68124 original size:17 final size:16
Alignment explanation
Indices: 68104--68180 Score: 75
Period size: 17 Copynumber: 4.6 Consensus size: 16
68094 AAATCCTCTT
68104 AAATCCAAACCCCTTAA
1 AAATCCAAACCCC-TAA
*
68121 AAATCCAAACTCCCT-T
1 AAATCCAAAC-CCCTAA
*
68137 AAACCCAAATACCCCTAA
1 AAATCC-AA-ACCCCTAA
*
68155 AAATCCAAAACCCCCAA
1 AAATCC-AAACCCCTAA
68172 AAATCCAAA
1 AAATCCAAA
68181 AATCCCAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
16 8 0.16
17 30 0.59
18 13 0.25
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.14
Consensus pattern (16 bp):
AAATCCAAACCCCTAA
Found at i:68145 original size:33 final size:35
Alignment explanation
Indices: 68092--68164 Score: 98
Period size: 34 Copynumber: 2.1 Consensus size: 35
68082 TTTTAATTTT
*
68092 CAAAATCCTCTTAAATCC-AA-ACCCCTTAAAAATC
1 CAAAATCCTCTTAAACCCAAATACCCC-TAAAAATC
*
68126 CAAACTCC-CTTAAACCCAAATACCCCTAAAAATC
1 CAAAATCCTCTTAAACCCAAATACCCCTAAAAATC
68160 CAAAA
1 CAAAA
68165 CCCCCAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 8 0.24
34 21 0.62
35 5 0.15
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (35 bp):
CAAAATCCTCTTAAACCCAAATACCCCTAAAAATC
Found at i:68187 original size:17 final size:17
Alignment explanation
Indices: 68141--68189 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
68131 TCCCTTAAAC
*
68141 CCAAATACCCCTAAAAAT
1 CCAAAAACCCC-AAAAAT
*
68159 CCAAAACCCCCAAAAAT
1 CCAAAAACCCCAAAAAT
*
68176 CCAAAAATCCCAAA
1 CCAAAAACCCCAAA
68190 CTTTTAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.53, C:0.37, G:0.00, T:0.10
Consensus pattern (17 bp):
CCAAAAACCCCAAAAAT
Found at i:68277 original size:14 final size:15
Alignment explanation
Indices: 68252--68304 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 15
68242 AACCCTTAAA
68252 TCAAAACTCCAAACC
1 TCAAAACTCCAAACC
68267 TCAAAAC-CCAAACC
1 TCAAAACTCCAAACC
68281 -CTAAAATCTCCAAA-C
1 TC-AAAA-CTCCAAACC
68296 TCTAAAACT
1 TC-AAAACT
68305 AAAACCCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.03
14 11 0.32
15 11 0.32
16 11 0.32
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (15 bp):
TCAAAACTCCAAACC
Found at i:68294 original size:30 final size:29
Alignment explanation
Indices: 68254--68315 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
68244 CCCTTAAATC
*
68254 AAAACTCCAAAC-CTCAAAACCCAAACCCT
1 AAAACTCCAAACTCT-AAAACCAAAACCCT
*
68283 AAAATCTCCAAACTCTAAAACTAAAACCCT
1 AAAA-CTCCAAACTCTAAAACCAAAACCCT
68313 AAA
1 AAA
68316 CCTTTCATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 4 0.14
30 23 0.79
31 2 0.07
ACGTcount: A:0.52, C:0.34, G:0.00, T:0.15
Consensus pattern (29 bp):
AAAACTCCAAACTCTAAAACCAAAACCCT
Found at i:73487 original size:19 final size:18
Alignment explanation
Indices: 73456--73495 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
73446 GCATAAAAAT
73456 AAAAAAAACAAAAAAACA
1 AAAAAAAACAAAAAAACA
*
73474 AAAAAAGAAGAAAAAAACA
1 AAAAAA-AACAAAAAAACA
73493 AAA
1 AAA
73496 GGGACATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (18 bp):
AAAAAAAACAAAAAAACA
Found at i:75542 original size:123 final size:121
Alignment explanation
Indices: 75358--76039 Score: 1042
Period size: 121 Copynumber: 5.7 Consensus size: 121
75348 AAGCCATGTT
*
75358 TTAAAAGATTTTTAAATTTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTG
1 TTAAAAGATTTTCAAA-TTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTG
* * * * *
75423 AGATTTATAAGACCTCCTGGCATAATCTCTAGAAGCCTTTGTGCACGACTTTCATGTT
65 AGATTTGTAAGACCTCCGGGCATAATCTCTAGAAGCCTTTGTGCATGACTTTCAAG-A
* * *
75481 TTAAAATATTTTCAAACTTTTAAAGTTTCATTGCCTTTGATTATGAGGAGCATTCAAAGATTTTT
1 TTAAAAGATTTTCAAA-TTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTG
* *
75546 AGATTTGTAAGACCTCCGGGCATAATCTCTAGAAGCTTTTATGCATGACTTTCAAGA
65 AGATTTGTAAGACCTCCGGGCATAATCTCTAGAAGCCTTTGTGCATGACTTTCAAGA
*
75603 TTAAAAGATTTTCAAATTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTTA
1 TTAAAAGATTTTCAAATTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGA
*
75668 GATTTGTAAGACCTCCGAGCATAATCTCTAGAAGCCTTTGTGCATGACTTTCAAGA
66 GATTTGTAAGACCTCCGGGCATAATCTCTAGAAGCCTTTGTGCATGACTTTCAAGA
* *
75724 TTAAAAGATTTTTAAATTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTTA
1 TTAAAAGATTTTCAAATTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGA
* *
75789 GATTTGTAAGACCTCTGGGCATAATCTCTAAAAGCCTTTGTGCATGACTTTCAAGA
66 GATTTGTAAGACCTCCGGGCATAATCTCTAGAAGCCTTTGTGCATGACTTTCAAGA
75845 TTAAAAGATTTTCAAATTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGA
1 TTAAAAGATTTTCAAATTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGA
* * * * **
75910 GATTTATAAGAGCTCCGGGCATAATCTCTAAAAGCCTCTGTGCACAACTTTC----
66 GATTTGTAAGACCTCCGGGCATAATCTCTAGAAGCCTTTGTGCATGACTTTCAAGA
75962 ----AAG-TTTT-AAATTTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTG
1 TTAAAAGATTTTCAAA-TTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTG
76021 AGATTCTGTAAGACCTCCG
65 AGATT-TGTAAGACCTCCG
76040 AACATGATTT
Statistics
Matches: 526, Mismatches: 31, Indels: 14
0.92 0.05 0.02
Matches are distributed among these distances:
111 3 0.01
112 57 0.11
113 14 0.03
121 327 0.62
122 15 0.03
123 110 0.21
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (121 bp):
TTAAAAGATTTTCAAATTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGA
GATTTGTAAGACCTCCGGGCATAATCTCTAGAAGCCTTTGTGCATGACTTTCAAGA
Found at i:76156 original size:21 final size:21
Alignment explanation
Indices: 76130--76196 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
76120 TTATCCCAAT
76130 CAATTCTGTAAGACCTTCGGG
1 CAATTCTGTAAGACCTTCGGG
* *
76151 CAATTCTATAAGACCTCCGGG
1 CAATTCTGTAAGACCTTCGGG
*
76172 CATGATTCTGTAAGACCTTCAGG
1 CA--ATTCTGTAAGACCTTCGGG
76195 CA
1 CA
76197 TGATTTCTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 21 0.54
23 18 0.46
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (21 bp):
CAATTCTGTAAGACCTTCGGG
Found at i:76185 original size:23 final size:23
Alignment explanation
Indices: 76132--76219 Score: 101
Period size: 23 Copynumber: 4.0 Consensus size: 23
76122 ATCCCAATCA
*
76132 ATTCTGTAAGACCTTCGGGCA--
1 ATTCTGTAAGACCTCCGGGCATG
*
76153 ATTCTATAAGACCTCCGGGCATG
1 ATTCTGTAAGACCTCCGGGCATG
* *
76176 ATTCTGTAAGACCTTCAGGCATG
1 ATTCTGTAAGACCTCCGGGCATG
* *
76199 ATT-TCTAAGACCTCCGAGCAT
1 ATTCTGTAAGACCTCCGGGCAT
76220 AAATTTCATT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
21 19 0.34
22 14 0.25
23 23 0.41
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (23 bp):
ATTCTGTAAGACCTCCGGGCATG
Found at i:76304 original size:153 final size:155
Alignment explanation
Indices: 76022--76343 Score: 508
Period size: 153 Copynumber: 2.1 Consensus size: 155
76012 AAGATTTTGA
* * * *
76022 GATTCTGTAAGACC-TCCGAACATGATTTGTAAAACCTCCGGGCATAAATTTGATTCACGGTGTT
1 GATTCTGTAAGACCTTCAGAACATGATTTCTAAAACCTCCGAGCATAAATTTCATTCACGGTGTT
*
76086 ATCCCGATCAATTCTATAATTTTGACTTGTGAGGTTATCCCAATCAATTCTGTAAGACCTTCGGG
66 ATCCCGATCAATTCTATAATTTTGACTTGTGAGGTTATCCCAATCAATTCTGTAAGACCTCCGGG
76151 CA-ATTCTATAAGACCTCCGGGCAT
131 CAGATTCTATAAGACCTCCGGGCAT
* * *
76175 GATTCTGTAAGACCTTCAG-GCATGATTTCTAAGACCTCCGAGCATAAATTTCATTCGCGGTGTT
1 GATTCTGTAAGACCTTCAGAACATGATTTCTAAAACCTCCGAGCATAAATTTCATTCACGGTGTT
*
76239 ATCCCGATCAATTCTATAATTTTGACTTGTGATGTTATCCCAATCAATTCTGTAAGACCTCCGGG
66 ATCCCGATCAATTCTATAATTTTGACTTGTGAGGTTATCCCAATCAATTCTGTAAGACCTCCGGG
*
76304 CATGATTCTGTAAGACCTCCGGGCAT
131 CA-GATTCTATAAGACCTCCGGGCAT
*
76330 GATT-TCTAAGACCT
1 GATTCTGTAAGACCT
76344 CCGGGCATAA
Statistics
Matches: 155, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
153 118 0.76
154 12 0.08
155 25 0.16
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (155 bp):
GATTCTGTAAGACCTTCAGAACATGATTTCTAAAACCTCCGAGCATAAATTTCATTCACGGTGTT
ATCCCGATCAATTCTATAATTTTGACTTGTGAGGTTATCCCAATCAATTCTGTAAGACCTCCGGG
CAGATTCTATAAGACCTCCGGGCAT
Found at i:76315 original size:23 final size:23
Alignment explanation
Indices: 76285--76351 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
76275 ATCCCAATCA
76285 ATTCTGTAAGACCTCCGGGCATG
1 ATTCTGTAAGACCTCCGGGCATG
76308 ATTCTGTAAGACCTCCGGGCATG
1 ATTCTGTAAGACCTCCGGGCATG
*
76331 ATT-TCTAAGACCTCCGGGCAT
1 ATTCTGTAAGACCTCCGGGCAT
76352 AAATTTGATT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 17 0.40
23 26 0.60
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (23 bp):
ATTCTGTAAGACCTCCGGGCATG
Found at i:76388 original size:132 final size:131
Alignment explanation
Indices: 76151--76458 Score: 465
Period size: 132 Copynumber: 2.4 Consensus size: 131
76141 GACCTTCGGG
* *
76151 CAATTCTATAAGACCTCCGGGCATGATTCTGTAAGACCTTCAGGCATGATTTCTAAGACCTCCGA
1 CAATTCTGTAAGACCTCCGGGCATGATTCTGTAAGACCTTCGGGCATGATTTCTAAGACCTCCGA
* * * *
76216 GCATAAATTTCATTCGCGGTGTTATCCCGATCAATTCTATAATTTTGACTTGTGATGTTATCCCA
66 GCATAAATTTCATTCACGGTGTTATCCCAATCAATTCTATAATTTTAACTTGCGATGTTAT-CCA
76281 AT
130 AT
* *
76283 CAATTCTGTAAGACCTCCGGGCATGATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGG
1 CAATTCTGTAAGACCTCCGGGCATGATTCTGTAAGACCTTCGGGCATGATTTCTAAGACCTCCGA
* * * *
76348 GCATAAATTTGATTTACGGTGTTATCCCAATCAATTCTATAATTTTAACTTGCGGTGTTATCCAG
66 GCATAAATTTCATTCACGGTGTTATCCCAATCAATTCTATAATTTTAACTTGCGATGTTATCCAA
76413 T
131 T
* * *
76414 CAATTCTGTAAGACCTCCAGGCATGATT-TTTAAAACCTTCGGGCA
1 CAATTCTGTAAGACCTCCGGGCATGATTCTGTAAGACCTTCGGGCA
76459 ATTTTGTAAG
Statistics
Matches: 160, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
130 14 0.09
131 31 0.19
132 115 0.72
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (131 bp):
CAATTCTGTAAGACCTCCGGGCATGATTCTGTAAGACCTTCGGGCATGATTTCTAAGACCTCCGA
GCATAAATTTCATTCACGGTGTTATCCCAATCAATTCTATAATTTTAACTTGCGATGTTATCCAA
T
Found at i:76458 original size:22 final size:22
Alignment explanation
Indices: 76422--76502 Score: 69
Period size: 22 Copynumber: 3.7 Consensus size: 22
76412 GTCAATTCTG
* *
76422 TAAGACCTCCAGGCATGATTTT
1 TAAGACCTTCGGGCATGATTTT
*
76444 TAAAACCTTCGGGCA--ATTTT
1 TAAGACCTTCGGGCATGATTTT
* *
76464 GTAAGA-CTTCCGGACATGATTTC
1 -TAAGACCTT-CGGGCATGATTTT
*
76487 TAAGACTTTCGGGCAT
1 TAAGACCTTCGGGCAT
76503 AAATTTGATT
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
20 8 0.17
21 9 0.20
22 23 0.50
23 6 0.13
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (22 bp):
TAAGACCTTCGGGCATGATTTT
Found at i:76482 original size:43 final size:43
Alignment explanation
Indices: 76414--76501 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
76404 GTTATCCAGT
*
76414 CAATTCTGTAAGACCTCCAGGCATGATTTTTAAAACCTTCGGG
1 CAATTCTGTAAGACCTCCAGGCATGATTTCTAAAACCTTCGGG
* * * *
76457 CAATTTTGTAAGACTTCC-GGACATGATTTCTAAGACTTTCGGG
1 CAATTCTGTAAGACCTCCAGG-CATGATTTCTAAAACCTTCGGG
76500 CA
1 CA
76502 TAAATTTGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 2 0.05
43 37 0.95
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (43 bp):
CAATTCTGTAAGACCTCCAGGCATGATTTCTAAAACCTTCGGG
Found at i:76649 original size:22 final size:23
Alignment explanation
Indices: 76571--76652 Score: 123
Period size: 23 Copynumber: 3.6 Consensus size: 23
76561 ATCCCAGTCA
* *
76571 ATTCTGTAAGACCTTC-GATCATG
1 ATTCTGTAAGACCTCCAG-GCATG
76594 ATTCTGTAAGACCTCCAGGCATG
1 ATTCTGTAAGACCTCCAGGCATG
76617 ATTCTGTAAGACCTCCAGGCATG
1 ATTCTGTAAGACCTCCAGGCATG
76640 ATT-TGTAAGACCT
1 ATTCTGTAAGACCT
76653 TCGGGCATAA
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
22 10 0.18
23 45 0.80
24 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (23 bp):
ATTCTGTAAGACCTCCAGGCATG
Found at i:77036 original size:11 final size:11
Alignment explanation
Indices: 77011--77044 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
77001 CCACGCTCAC
77011 CAGCCA-CCTA
1 CAGCCACCCTA
*
77021 TAGCCACCCTA
1 CAGCCACCCTA
77032 CAGCCACCCTA
1 CAGCCACCCTA
77043 CA
1 CA
77045 ACCCCTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.29, C:0.50, G:0.09, T:0.12
Consensus pattern (11 bp):
CAGCCACCCTA
Found at i:77258 original size:6 final size:6
Alignment explanation
Indices: 77248--77300 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
77238 AAACAATCGA
* * *
77248 AAAAAA AAAAAC AGAAACAC AAAAAC AAAAAC AAAAAC AGAAAG AAAAA-
1 AAAAAC AAAAAC A-AAA-AC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC
77297 AAAA
1 AAAA
77301 GTCAAACAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
5 4 0.10
6 28 0.68
7 6 0.15
8 3 0.07
ACGTcount: A:0.83, C:0.11, G:0.06, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:77271 original size:20 final size:20
Alignment explanation
Indices: 77248--77299 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
77238 AAACAATCGA
*
77248 AAAAAAAAAAACAGAAACAC
1 AAAAAAAAAAACAAAAACAC
* *
77268 AAAAACAAAAACAAAAACAG
1 AAAAAAAAAAACAAAAACAC
77288 AAAGAAAAAAAA
1 AAA-AAAAAAAA
77300 AGTCAAACAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.83, C:0.12, G:0.06, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAACAAAAACAC
Found at i:77297 original size:26 final size:26
Alignment explanation
Indices: 77248--77298 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
77238 AAACAATCGA
*
77248 AAAAAAAAAAACAGAAACACAAAAAC
1 AAAAAAAAAAACAGAAACAAAAAAAC
* *
77274 AAAAACAAAAACAGAAAGAAAAAAA
1 AAAAAAAAAAACAGAAACAAAAAAA
77299 AAGTCAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAAACAGAAACAAAAAAAC
Found at i:78415 original size:35 final size:35
Alignment explanation
Indices: 78351--78419 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
78341 TTAAATCTGA
* **
78351 ACCCCCTAAAAATCCAAAATCCCTTAAATCCAAAT
1 ACCCCCTAAAAATCCAAAACCCCAAAAATCCAAAT
78386 ACCCCC-AAAAATCCAAAACCCCCAAAAATCCAAA
1 ACCCCCTAAAAATCCAAAA-CCCCAAAAATCCAAA
78420 AATCCAAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 12 0.40
35 18 0.60
ACGTcount: A:0.49, C:0.38, G:0.00, T:0.13
Consensus pattern (35 bp):
ACCCCCTAAAAATCCAAAACCCCAAAAATCCAAAT
Found at i:78420 original size:7 final size:8
Alignment explanation
Indices: 78390--78428 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
78380 CCAAATACCC
78390 CCAAAAAT
1 CCAAAAAT
**
78398 CCAAAACCC
1 CCAAAA-AT
78407 CCAAAAAT
1 CCAAAAAT
78415 CCAAAAAT
1 CCAAAAAT
78423 CCAAAA
1 CCAAAA
78429 CTTTTAAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 20 0.77
9 6 0.23
ACGTcount: A:0.59, C:0.33, G:0.00, T:0.08
Consensus pattern (8 bp):
CCAAAAAT
Found at i:78421 original size:18 final size:17
Alignment explanation
Indices: 78350--78420 Score: 90
Period size: 17 Copynumber: 4.1 Consensus size: 17
78340 CTTAAATCTG
78350 AACCCCCTAAAAATCCAA
1 AACCCCC-AAAAATCCAA
* **
78368 AA-TCCCTTAAATCCAA
1 AACCCCCAAAAATCCAA
78384 ATACCCCCAAAAATCCAA
1 A-ACCCCCAAAAATCCAA
78402 AACCCCCAAAAATCCAA
1 AACCCCCAAAAATCCAA
78419 AA
1 AA
78421 ATCCAAAACT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
16 9 0.20
17 22 0.49
18 14 0.31
ACGTcount: A:0.51, C:0.37, G:0.00, T:0.13
Consensus pattern (17 bp):
AACCCCCAAAAATCCAA
Found at i:78516 original size:14 final size:15
Alignment explanation
Indices: 78491--78519 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
78481 AACTCTTAAA
78491 TCAAAACTCCAAACC
1 TCAAAACTCCAAACC
78506 TCAAAAC-CCAAACC
1 TCAAAACTCCAAACC
78520 CTAAAATCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.48, C:0.41, G:0.00, T:0.10
Consensus pattern (15 bp):
TCAAAACTCCAAACC
Found at i:78525 original size:14 final size:15
Alignment explanation
Indices: 78493--78542 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
78483 CTCTTAAATC
*
78493 AAAACTCCAAA-CCT
1 AAAACGCCAAACCCT
78507 CAAAAC-CCAAACCCT
1 -AAAACGCCAAACCCT
*
78522 AAAATCGCCAAACTCT
1 AAAA-CGCCAAACCCT
78538 AAAAC
1 AAAAC
78543 TAAAACCCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 9 0.29
15 10 0.32
16 12 0.39
ACGTcount: A:0.50, C:0.36, G:0.02, T:0.12
Consensus pattern (15 bp):
AAAACGCCAAACCCT
Found at i:79903 original size:20 final size:20
Alignment explanation
Indices: 79875--79923 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
79865 AAATCAAAGT
79875 TAAACTAAGGATAAAATACA
1 TAAACTAAGGATAAAATACA
* *
79895 TAAATTAAGGGTAAAATACA
1 TAAACTAAGGATAAAATACA
*
79915 TCAACTAAG
1 TAAACTAAG
79924 AAGTGATTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.22
Consensus pattern (20 bp):
TAAACTAAGGATAAAATACA
Found at i:84868 original size:27 final size:26
Alignment explanation
Indices: 84825--84886 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
84815 CCATTTTATT
** *
84825 TTATTTTTATTTTTTATCTAATAATA
1 TTATTTTTATTAGTTATCCAATAATA
*
84851 TATATTTTTATTAGTTATCCATTAATA
1 T-TATTTTTATTAGTTATCCAATAATA
84878 TTATTTTTA
1 TTATTTTTA
84887 ATTATTTAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 9 0.29
27 22 0.71
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (26 bp):
TTATTTTTATTAGTTATCCAATAATA
Found at i:84934 original size:16 final size:16
Alignment explanation
Indices: 84915--84954 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
84905 TATATTTATC
*
84915 TTTTTTTT-TTTTGGA
1 TTTTTTTTGTTTTGAA
84930 TTTTTTTTGTTTTGAA
1 TTTTTTTTGTTTTGAA
84946 TTTTGTTTT
1 TTTT-TTTT
84955 AATTATCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 10 0.45
17 4 0.18
ACGTcount: A:0.07, C:0.00, G:0.12, T:0.80
Consensus pattern (16 bp):
TTTTTTTTGTTTTGAA
Found at i:85698 original size:11 final size:11
Alignment explanation
Indices: 85682--85708 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
85672 CTATTCAATT
85682 TTTTTTTGGTA
1 TTTTTTTGGTA
85693 TTTTTTTGGTA
1 TTTTTTTGGTA
85704 TTTTT
1 TTTTT
85709 ATTTTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.15, T:0.78
Consensus pattern (11 bp):
TTTTTTTGGTA
Found at i:85923 original size:54 final size:55
Alignment explanation
Indices: 85783--85936 Score: 206
Period size: 54 Copynumber: 2.8 Consensus size: 55
85773 TTTTTAAATA
85783 TTTT-AAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAATTTCAAAAAAAATTTT
1 TTTTGAAGG-AAAGTTGAAAGTATCAATTTTCCTTAAAAATAATTTC---AAAAATTTT
* * *
85841 TTTTGAAGGAAAGTTGAAAGTATTAATTTTTCTTAAAAATAATTTC-AAATTTTT
1 TTTTGAAGGAAAGTTGAAAGTATCAATTTTCCTTAAAAATAATTTCAAAAATTTT
*
85895 TTTTGAAGGAAAGTTGAAAGTATCAA-TTTCCTTTGAAAATAA
1 TTTTGAAGGAAAGTTGAAAGTATCAATTTTCC-TTAAAAATAA
85937 AAGGGTTTAA
Statistics
Matches: 88, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
53 4 0.05
54 41 0.47
58 39 0.44
59 4 0.05
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (55 bp):
TTTTGAAGGAAAGTTGAAAGTATCAATTTTCCTTAAAAATAATTTCAAAAATTTT
Found at i:86013 original size:14 final size:15
Alignment explanation
Indices: 85994--86026 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
85984 ATTTTCCTAA
85994 AAAATAAAA-TTTCT
1 AAAATAAAATTTTCT
86008 AAAATAAAATTTTCT
1 AAAATAAAATTTTCT
86023 AAAA
1 AAAA
86027 CATTTTGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAAATTTTCT
Found at i:89583 original size:58 final size:57
Alignment explanation
Indices: 89215--89632 Score: 478
Period size: 60 Copynumber: 6.9 Consensus size: 57
89205 ATTTTTTTTG
* * * * * *
89215 TTCAGGGAAAATTGATACTTTCAACTTTTCCCCAAAAGTATTTTCTTGAAATTTTAAT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAATTTTTTTTTTGAAA-TTTATT
* * *
89273 TTCGAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTT-GT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCC-CTAAAATTT-TTTTTTTG-AAATTTATT
89332 TTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTTTTGAAAATTTTGA
1 TTC-AAGGAAAATTGATACTTTCAACTTTTCCCT--AAA-A---TTTTTTTTTTG-AAA-TTT-A
89397 TT
56 TT
*
89399 TTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATCTTTTTTGTTTGAAATTTATT
1 TTCAAGGAAAATTGATACTTTCAACTTTT-CCCTAAAAT-TTTTTT-TTTGAAATTTATT
* * * * *
89459 TTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTTGACT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAATTTTTTTTTTGAAA-TTT-ATT
*
89518 TTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAATCCTTTTTTTTGAAATTTATT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAT-TTTTTTTTTGAAATTTATT
89576 TTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCCCT-AAAAT-TTTTTTTTT-GAAATTT
89633 TGATATTTTA
Statistics
Matches: 314, Mismatches: 25, Indels: 40
0.83 0.07 0.11
Matches are distributed among these distances:
57 6 0.02
58 72 0.23
59 72 0.23
60 85 0.27
61 10 0.03
62 10 0.03
63 4 0.01
64 13 0.04
65 9 0.03
66 26 0.08
67 7 0.02
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (57 bp):
TTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAATTTTTTTTTTGAAATTTATT
Found at i:89689 original size:27 final size:27
Alignment explanation
Indices: 89651--89707 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
89641 TATTTAAAGA
89651 AAATAAAAAT-AAAAATAAAGTGAAAAT
1 AAATAAAAATAAAAAATAAAG-GAAAAT
* *
89678 AAATAAAGATAAAAAATAAAGGAAAGT
1 AAATAAAAATAAAAAATAAAGGAAAAT
89705 AAA
1 AAA
89708 ACCAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.16
Consensus pattern (27 bp):
AAATAAAAATAAAAAATAAAGGAAAAT
Found at i:89693 original size:17 final size:17
Alignment explanation
Indices: 89673--89726 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
89663 AAATAAAGTG
89673 AAAATAAATAAAGATAA
1 AAAATAAATAAAGATAA
*
89690 AAAATAAAGGAAAG-TAA
1 AAAATAAA-TAAAGATAA
*
89707 AACCA-AAATAAAGATAA
1 AA-AATAAATAAAGATAA
89724 AAA
1 AAA
89727 GAATATTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
16 4 0.13
17 21 0.70
18 5 0.17
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.13
Consensus pattern (17 bp):
AAAATAAATAAAGATAA
Found at i:89776 original size:22 final size:22
Alignment explanation
Indices: 89749--89790 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
89739 AACCTAATCT
89749 AATAAA-AAATAATAAAAAAACA
1 AATAAATAAA-AATAAAAAAACA
*
89771 AATAAATGAAAATAAAAAAA
1 AATAAATAAAAATAAAAAAA
89791 AACCTGGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (22 bp):
AATAAATAAAAATAAAAAAACA
Found at i:90723 original size:3 final size:3
Alignment explanation
Indices: 90715--90849 Score: 66
Period size: 3 Copynumber: 42.7 Consensus size: 3
90705 TATTACAAAA
90715 AAT AAT AAT AAT ATAT AAT AAT -AT AAT AAAT ATAT AACT ATAT AAAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT -AAT A-AT AA-T A-AT -AAT
* * * *
90762 AA- AAT ACAT -AT AA- ATCT AAT -CT AAT AAA AAA AAT AAAT AAAT ATAT
1 AAT AAT A-AT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT -AAT A-AT
*
90808 ACAT -AT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AA
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA
90850 ATACAAAAGA
Statistics
Matches: 106, Mismatches: 9, Indels: 34
0.71 0.06 0.23
Matches are distributed among these distances:
2 10 0.09
3 62 0.58
4 32 0.30
5 2 0.02
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:90762 original size:58 final size:55
Alignment explanation
Indices: 90663--90852 Score: 150
Period size: 50 Copynumber: 3.6 Consensus size: 55
90653 AGATAATTTT
* *** *
90663 AAAA-AATAATAATAATAAT-AA-AAT-AAGATAAACCCAAAAATATATTACA-A
1 AAAATAATAATAATAATAATAAATAATAAATATAAATATATAAATATATTACATA
* *
90713 AAAATAATAATAATATATAATAATATAATAAATATATAACTATATAAATAAAATACATA
1 AAAATAATAATAATA-ATAATAA-ATAATAAATATA-AA-TATATAAATATATTACATA
* * * * *
90772 TAAAT-CTAAT-CTAATAA-AAAAAAT-AA-ATAAATATATACATATATTA-ATA
1 AAAATAATAATAATAATAATAAATAATAAATATAAATATATAAATATATTACATA
*
90821 ATAATAATAATAATAATAATAAATAATAAATA
1 AAAATAATAATAATAATAATAAATAATAAATA
90853 CAAAAGAAAG
Statistics
Matches: 107, Mismatches: 19, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
49 6 0.06
50 20 0.19
51 18 0.17
52 14 0.13
53 5 0.05
54 6 0.06
55 5 0.05
56 9 0.08
57 4 0.04
58 15 0.14
59 5 0.05
ACGTcount: A:0.65, C:0.05, G:0.01, T:0.29
Consensus pattern (55 bp):
AAAATAATAATAATAATAATAAATAATAAATATAAATATATAAATATATTACATA
Found at i:91043 original size:1 final size:1
Alignment explanation
Indices: 91039--91089 Score: 57
Period size: 1 Copynumber: 51.0 Consensus size: 1
91029 CCCTTTTTAC
* * * * *
91039 TTTTTTTTGTTTTTGTTTTTTTTTGTTTTTTTTTTGTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
91090 ACCAAAGCTC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:91052 original size:10 final size:10
Alignment explanation
Indices: 91039--91089 Score: 70
Period size: 10 Copynumber: 5.3 Consensus size: 10
91029 CCCTTTTTAC
*
91039 TTTTT-TTTG
1 TTTTTGTTTT
91048 TTTTTGTTTT
1 TTTTTGTTTT
91058 TTTTTGTTTT
1 TTTTTGTTTT
*
91068 TTTTT-TGTT
1 TTTTTGTTTT
91077 TTTTTGTTTT
1 TTTTTGTTTT
91087 TTT
1 TTT
91090 ACCAAAGCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
9 13 0.35
10 24 0.65
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:91058 original size:16 final size:16
Alignment explanation
Indices: 91039--91089 Score: 72
Period size: 14 Copynumber: 3.4 Consensus size: 16
91029 CCCTTTTTAC
91039 TTTTTTTTGTTTTTGT
1 TTTTTTTTGTTTTTGT
91055 TTTTTTTTG-TTTT-T
1 TTTTTTTTGTTTTTGT
*
91069 TTTTTGTT-TTTTTGT
1 TTTTTTTTGTTTTTGT
91084 TTTTTT
1 TTTTTT
91090 ACCAAAGCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 12 0.39
15 10 0.32
16 9 0.29
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (16 bp):
TTTTTTTTGTTTTTGT
Found at i:91067 original size:21 final size:20
Alignment explanation
Indices: 91039--91088 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 20
91029 CCCTTTTTAC
91039 TTTTTTTTGTTTTTGTTTTT
1 TTTTTTTTGTTTTTGTTTTT
*
91059 TTTTGTTTTTTTTTTGTTTTT
1 TTTT-TTTTGTTTTTGTTTTT
91080 TTGTTTTTT
1 TT-TTTTTT
91089 TACCAAAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 4 0.15
21 21 0.78
22 2 0.07
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (20 bp):
TTTTTTTTGTTTTTGTTTTT
Found at i:91089 original size:11 final size:11
Alignment explanation
Indices: 91042--91081 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
91032 TTTTTACTTT
91042 TTTTTGTTTTTG
1 TTTTT-TTTTTG
91054 -TTTTTTTTTG
1 TTTTTTTTTTG
91064 TTTTTTTTTTG
1 TTTTTTTTTTG
91075 TTTTTTT
1 TTTTTTT
91082 GTTTTTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 6 0.22
11 21 0.78
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:91177 original size:41 final size:41
Alignment explanation
Indices: 91096--91434 Score: 436
Period size: 41 Copynumber: 8.1 Consensus size: 41
91086 TTTTACCAAA
* *
91096 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-ATAAATT
* *
91139 GCTCCTTTAAACAGAGG-A-AACGAAACTTTGGAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGGAAAATAAATT
*
91180 GCTCCTTTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAA-TAAATT
*
91221 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAATAAATT
*
91263 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATT
* *
91304 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAA-TAAATT
*
91346 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAA-TAAATT
* *
91388 GCTCCTCTAAACAGAGGTA--ACGAAACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGGAAAATAAATT
*
91429 ACTCCT
1 GCTCCT
91435 AGACAATCAT
Statistics
Matches: 269, Mismatches: 17, Indels: 22
0.87 0.06 0.07
Matches are distributed among these distances:
40 8 0.03
41 118 0.44
42 114 0.42
43 29 0.11
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATT
Found at i:91423 original size:83 final size:81
Alignment explanation
Indices: 91096--91434 Score: 457
Period size: 83 Copynumber: 4.1 Consensus size: 81
91086 TTTTACCAAA
* * * * *
91096 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATTGCTCCTTTAAACAGAGG-AAAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-GTAAATTGCTCCTCTAAACAGAGGTACAC
91160 GAAACTTTGGAAAATAAATT
64 G--ACTTTGGAAAATAAATT
* * *
91180 GCTCCTTTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTA-CACG
91245 ACTTTGGAAAAATAAATT
65 ACTTTGG-AAAATAAATT
*
91263 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTA-CACG
*
91328 ACTTTGAAAAAGTAAATT
65 ACTTTGGAAAA-TAAATT
91346 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTA-ACG
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACACG
*
91410 AAACTTTGGAAAGTAAATT
65 --ACTTTGGAAAATAAATT
*
91429 ACTCCT
1 GCTCCT
91435 AGACAATCAT
Statistics
Matches: 232, Mismatches: 16, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
82 35 0.15
83 124 0.53
84 73 0.31
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACACGA
CTTTGGAAAATAAATT
Found at i:92665 original size:24 final size:23
Alignment explanation
Indices: 92638--92738 Score: 86
Period size: 24 Copynumber: 4.4 Consensus size: 23
92628 TCAATTTGAA
92638 TCTCTTTTTTTCATTTTTTCATTT
1 TCTCTTTTTTTCATTTTTT-ATTT
* * *
92662 TCTCATTTTTTCCTTTTTTTTTT
1 TCTCTTTTTTTCATTTTTTATTT
92685 TC-CTTTTTTTC-TTTTTT-TTCT
1 TCTCTTTTTTTCATTTTTTATT-T
*
92706 T-T-TTTTTTATCATCTTTTTTTTT
1 TCTCTTTTTT-TCAT-TTTTTATTT
*
92729 TCTCATTTTT
1 TCTCTTTTTT
92739 CATCCATTGT
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
20 8 0.12
21 10 0.16
22 9 0.14
23 12 0.19
24 20 0.31
25 5 0.08
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (23 bp):
TCTCTTTTTTTCATTTTTTATTT
Found at i:92684 original size:12 final size:13
Alignment explanation
Indices: 92667--92711 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
92657 CATTTTCTCA
92667 TTTTTTCCTTTTT
1 TTTTTTCCTTTTT
92680 TTTTTTCCTTTTT
1 TTTTTTCCTTTTT
92693 TTCTTTT--TTTTCT
1 TT-TTTTCCTTTT-T
92706 TTTTTT
1 TTTTTT
92712 TTATCATCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.27
13 18 0.60
14 4 0.13
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTTCCTTTTT
Found at i:92702 original size:8 final size:8
Alignment explanation
Indices: 92640--92711 Score: 67
Period size: 8 Copynumber: 9.1 Consensus size: 8
92630 AATTTGAATC
92640 TCTTTTTT
1 TCTTTTTT
*
92648 TCATTTTT
1 TCTTTTTT
* *
92656 TCATTTTC
1 TCTTTTTT
*
92664 TCATTTTT
1 TCTTTTTT
*
92672 TC-CTTTT
1 TCTTTTTT
92679 T-TTTTTT
1 TCTTTTTT
*
92686 CCTTTTTT
1 TCTTTTTT
92694 TCTTTTTTT
1 TC-TTTTTT
92703 TCTTTTTT
1 TCTTTTTT
92711 T
1 T
92712 TTATCATCTT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
7 9 0.17
8 37 0.69
9 8 0.15
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (8 bp):
TCTTTTTT
Found at i:92712 original size:9 final size:9
Alignment explanation
Indices: 92678--92712 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
92668 TTTTTCCTTT
92678 TTTTTTTTC
1 TTTTTTTTC
*
92687 CTTTTTTTC
1 TTTTTTTTC
92696 TTTTTTTTC
1 TTTTTTTTC
92705 TTTTTTTT
1 TTTTTTTT
92713 TATCATCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:92712 original size:18 final size:18
Alignment explanation
Indices: 92678--92711 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
92668 TTTTTCCTTT
92678 TTTTTTTTCCTTTTTTTC
1 TTTTTTTTCCTTTTTTTC
92696 TTTTTTTT-CTTTTTTT
1 TTTTTTTTCCTTTTTTT
92712 TTATCATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (18 bp):
TTTTTTTTCCTTTTTTTC
Found at i:92723 original size:29 final size:27
Alignment explanation
Indices: 92651--92738 Score: 70
Period size: 29 Copynumber: 3.1 Consensus size: 27
92641 CTTTTTTTCA
* *
92651 TTTTTTCATTTTCTCATTTTTTCCTTTTT
1 TTTTTTCATTTT-TCTTTTTTTTC-TTTT
*
92680 TTTTTTCCTTTTTTTCTTTTTTTTCTTTT
1 TTTTTT-C-ATTTTTCTTTTTTTTCTTTT
* *
92709 TTTTTATCATCTTTT-TTTTTTCTCATTT
1 TTTTT-TCAT-TTTTCTTTTTTTTCTTTT
92737 TT
1 TT
92739 CATCCATTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
28 14 0.29
29 20 0.41
30 11 0.22
31 4 0.08
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.80
Consensus pattern (27 bp):
TTTTTTCATTTTTCTTTTTTTTCTTTT
Found at i:92724 original size:16 final size:15
Alignment explanation
Indices: 92675--92738 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
92665 CATTTTTTCC
*
92675 TTTTTTTTTT-TCCT
1 TTTTTTTTTTATCAT
*
92689 TTTTTTCTTTT-T-TT
1 TTTTTT-TTTTATCAT
92703 TCTTTTTTTTTATCAT
1 T-TTTTTTTTTATCAT
*
92719 CTTTTTTTTTTCTCAT
1 -TTTTTTTTTTATCAT
92735 TTTT
1 TTTT
92739 CATCCATTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
14 12 0.29
15 15 0.36
16 14 0.33
17 1 0.02
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTTTTATCAT
Found at i:96701 original size:57 final size:60
Alignment explanation
Indices: 96585--96996 Score: 426
Period size: 57 Copynumber: 6.9 Consensus size: 60
96575 ATTTTTTTTG
* * * * * *
96585 TTCAGGGAAAATTGATACTTTCAAC-TTTC-CCCAAAA-GTATTTTCTTGAAATTTTAAT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCTCCTAAAATTTATTTTTTTGAAATTTGATT
* *
96642 TTCGAGGAAAATTGATACTTTCAACTTTTCTTC-AAAATTTATTTTTTTGAAATTT-A-T
1 TTCAAGGAAAATTGATACTTTCAACTTTTCTCCTAAAATTTATTTTTTTGAAATTTGATT
*
96699 TTCTAAGG-AAATTGATACTTTTCAACTTTTC-CCTAAAAATATTTTTTTTTTTGAAAATTTTGA
1 TTC-AAGGAAAATTGATAC-TTTCAACTTTTCTCCT--AAA-ATTTATTTTTTTG-AAA-TTTGA
96762 TT
59 TT
* *
96764 TTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATCTT-TTTTGTTTGAAATTT-ATT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCTCCTAAAAT-TTATTTT-TTTGAAATTTGATT
* * * * *
96824 TTTAAGAAAAATTGATACTTTCAACTTTT-TCCTAAAA-ATATTTTTTGGAAATTTTGACT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCTCCTAAAATTTATTTTTTTGAAA-TTTGATT
*
96883 TTCAAGGAAAATTGATACTTTCAACTTTTC-CCTAAAATCCT-TTTTTTTG-AATTT-ATT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCTCCTAAAAT-TTATTTTTTTGAAATTTGATT
*
96940 TTCAAGGAAAATTGATACTTTCAACTTTTC-CCTAAAATATTTTTTTTTTGGAAATTT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCTCCTAAAAT-TTATTTTTTT-GAAATTT
96997 TGATATTTTA
Statistics
Matches: 306, Mismatches: 23, Indels: 49
0.81 0.06 0.13
Matches are distributed among these distances:
57 86 0.28
58 41 0.13
59 61 0.20
60 45 0.15
61 16 0.05
62 12 0.04
63 12 0.04
64 17 0.06
65 16 0.05
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (60 bp):
TTCAAGGAAAATTGATACTTTCAACTTTTCTCCTAAAATTTATTTTTTTGAAATTTGATT
Found at i:97025 original size:6 final size:6
Alignment explanation
Indices: 97014--97080 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
97004 TTATTTAAAG
* *
97014 AAAATA AAAATA AAAAT- -AAGTG AAAATA ATAAGATA AAAATA AAAA-A
1 AAAATA AAAATA AAAATA AAAATA AAAATA A-AA-ATA AAAATA AAAATA
*
97061 TAAA-A AAAAT- AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAA
97081 GAATATTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
4 3 0.06
5 13 0.26
6 26 0.52
7 4 0.08
8 4 0.08
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:97055 original size:14 final size:14
Alignment explanation
Indices: 97014--97138 Score: 76
Period size: 14 Copynumber: 8.7 Consensus size: 14
97004 TTATTTAAAG
*
97014 AAAATAAAAATAAA
1 AAAATAAAAATAAT
*
97028 AATAAGTGAAAATAAT
1 AA-AA-TAAAAATAAT
*
97044 AAGATAAAAATAA-
1 AAAATAAAAATAAT
*
97057 AAAATAAAAAAAAT
1 AAAATAAAAATAAT
*
97071 AAAATAAAAAGAAT
1 AAAATAAAAATAAT
**
97085 ATTAAATAAACCTAAT
1 A--AAATAAAAATAAT
** *
97101 CTAATAAATAAAAAT
1 AAAATAAA-AATAAT
*
97116 AAAA-AAAAACAAAT
1 AAAATAAAAA-TAAT
97130 AAAA-AAAAA
1 AAAATAAAAA
97139 AAAAAACCTG
Statistics
Matches: 87, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
13 13 0.15
14 46 0.53
15 8 0.09
16 20 0.23
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (14 bp):
AAAATAAAAATAAT
Found at i:97055 original size:24 final size:22
Alignment explanation
Indices: 97013--97056 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
97003 TTTATTTAAA
97013 GAAAATAAAAATAAAAATAAGT
1 GAAAATAAAAATAAAAATAAGT
97035 GAAAATAATAAGATAAAAATAA
1 GAAAATAA-AA-ATAAAAATAA
97057 AAAATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 2 0.10
24 10 0.50
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (22 bp):
GAAAATAAAAATAAAAATAAGT
Found at i:97131 original size:20 final size:20
Alignment explanation
Indices: 97106--97145 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
97096 CTAATCTAAT
*
97106 AAATAAAAATAAAAAAAAAC
1 AAATAAAAAAAAAAAAAAAC
97126 AAATAAAAAAAAAAAAAAAC
1 AAATAAAAAAAAAAAAAAAC
97146 CTGGAGCGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.88, C:0.05, G:0.00, T:0.07
Consensus pattern (20 bp):
AAATAAAAAAAAAAAAAAAC
Found at i:97169 original size:5 final size:5
Alignment explanation
Indices: 97152--97182 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
97142 AAACCTGGAG
*
97152 CGGCT CGGAT CGGCT CGGCT CGGCT CGGCT C
1 CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT C
97183 AAGGAAGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.03, C:0.39, G:0.39, T:0.19
Consensus pattern (5 bp):
CGGCT
Found at i:97658 original size:25 final size:25
Alignment explanation
Indices: 97612--97663 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
97602 AATCTGGAAA
*
97612 TTTCCCAGAAATTTCCAGAAAATTT
1 TTTCCCAAAAATTTCCAGAAAATTT
*
97637 TTTCGCCAAAAATTTCTA-AAAATTT
1 TTTC-CCAAAAATTTCCAGAAAATTT
97662 TT
1 TT
97664 CTCACTCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (25 bp):
TTTCCCAAAAATTTCCAGAAAATTT
Found at i:100120 original size:43 final size:43
Alignment explanation
Indices: 100072--100325 Score: 171
Period size: 43 Copynumber: 5.9 Consensus size: 43
100062 GAGCATTTAG
*
100072 TTTCAAAGTTGTGATGCCTCTGATTAGAGGAGCTTTATTTATT
1 TTTCAAAGTCGTGATGCCTCTGATTAGAGGAGCTTTATTTATT
* * * *
100115 TTTCAAAAGTCGTGGTTGCCTCTGTTTGGAGGAGC--AATTTATT
1 TTTC-AAAGTCGT-GATGCCTCTGATTAGAGGAGCTTTATTTATT
* * * * * *
100158 GTTCAAAATTCATGGTTGCCTCT-ATTTAGAGAAGC--AATTTATT
1 TTTC-AAAGTCGT-GATGCCTCTGA-TTAGAGGAGCTTTATTTATT
* * * **
100201 TTTCAAAAGTCATGGTTGCCTCTGTTTAGAGGAGCAATATATT-TT
1 TTTC-AAAGTCGT-GATGCCTCTGATTAGAGGAGCTTTAT-TTATT
* *
100246 TTCCAAAGTCGTTGA-GCCTCTGATTAGAGGAGCTTTGTTTATT
1 TTTCAAAGTCG-TGATGCCTCTGATTAGAGGAGCTTTATTTATT
* * * * *
100289 TTTCAAAGTCGTTAAGGCTTTGTTTAGAGGAGCTTTA
1 TTTCAAAGTCGTGATGCCTCTGATTAGAGGAGCTTTA
100326 ATCAAAATTT
Statistics
Matches: 172, Mismatches: 29, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
42 4 0.02
43 126 0.73
44 14 0.08
45 26 0.15
46 2 0.01
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.41
Consensus pattern (43 bp):
TTTCAAAGTCGTGATGCCTCTGATTAGAGGAGCTTTATTTATT
Found at i:100265 original size:86 final size:86
Alignment explanation
Indices: 100087--100274 Score: 227
Period size: 86 Copynumber: 2.2 Consensus size: 86
100077 AAGTTGTGAT
* * * *
100087 GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAAGTCGTGGTTGCCTCTGTTTGGAGGAGCAA
1 GCCTCTGATTAGAGAAGC--AATTTATTTTTCAAAAGTCATGGTTGCCTCTGTTTAGAGGAGCAA
* * *
100152 TTTATTGTTCAAAATTCATGGTT
64 TATATTGTTCAAAAGTCATGGTA
100175 GCCTCT-ATTTAGAGAAGCAATTTATTTTTCAAAAGTCATGGTTGCCTCTGTTTAGAGGAGCAAT
1 GCCTCTGA-TTAGAGAAGCAATTTATTTTTCAAAAGTCATGGTTGCCTCTGTTTAGAGGAGCAAT
* * * *
100239 ATATTTTTTCCAAAGTCGTTG-A
65 ATA-TTGTTCAAAAGTCATGGTA
100261 GCCTCTGATTAGAG
1 GCCTCTGATTAGAG
100275 GAGCTTTGTT
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
86 57 0.66
87 14 0.16
88 15 0.17
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (86 bp):
GCCTCTGATTAGAGAAGCAATTTATTTTTCAAAAGTCATGGTTGCCTCTGTTTAGAGGAGCAATA
TATTGTTCAAAAGTCATGGTA
Found at i:100632 original size:19 final size:19
Alignment explanation
Indices: 100610--100646 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
100600 ATTATTTATC
*
100610 TATTAATGTATTTTTTTTA
1 TATTAATCTATTTTTTTTA
*
100629 TATTTATCTATTTTTTTT
1 TATTAATCTATTTTTTTT
100647 TTGGGATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.73
Consensus pattern (19 bp):
TATTAATCTATTTTTTTTA
Found at i:100632 original size:27 final size:27
Alignment explanation
Indices: 100533--100640 Score: 105
Period size: 27 Copynumber: 3.9 Consensus size: 27
100523 TATTTTATTT
* *
100533 TTATTTTTTTATATTTTTTTATCTAATAA
1 TTATTTTTTT-TA-TTATTTATCTATTAA
* * *
100562 -TATATATTTTTATTAGTTATCCATTAA
1 TTAT-TTTTTTTATTATTTATCTATTAA
100589 -TATTATTTTTTATTATTTATCTATTAA
1 TTATT-TTTTTTATTATTTATCTATTAA
100616 TGTATTTTTTTTA-TATTTATCTATT
1 T-TATTTTTTTTATTATTTATCTATT
100641 TTTTTTTTGG
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
26 1 0.01
27 45 0.67
28 12 0.18
29 9 0.13
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (27 bp):
TTATTTTTTTTATTATTTATCTATTAA
Found at i:100947 original size:21 final size:21
Alignment explanation
Indices: 100918--100961 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
100908 TTAGAGGCAG
*
100918 TTTAGAATTTTTAGGAGAATT
1 TTTAAAATTTTTAGGAGAATT
* *
100939 TTTAAAATTTTTTGGTGAATT
1 TTTAAAATTTTTAGGAGAATT
100960 TT
1 TT
100962 CTTTTGGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
TTTAAAATTTTTAGGAGAATT
Found at i:101652 original size:128 final size:132
Alignment explanation
Indices: 101495--101747 Score: 320
Period size: 137 Copynumber: 1.9 Consensus size: 132
101485 TTTTTTTAAA
* * * *
101495 ATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCT-TAAAAATAATT-TCAAA-AAAAATTT-T
1 ATATTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTAAAAAAAAAATTCTAAAATAAAAATTTCT
* * *
101556 -TTTTGAAGGAAAGTTGAAAGTATCAATTTCCTTTGAAAATAAAATGGTTT-AAAACAATATATA
66 ATTTTG-AGGAAAGTTGAAAGCATCAATTTCCCTTGAAAATAAAAAGGTTTGAAAACAATATATA
101619 TAT
130 TAT
*
101622 ATATTTTCAGGGAAAAGTTGAAAGTATCAATTTTCCTAAAAAAAAAATTCTAAAATAAAAATTTC
1 ATATTTT-AAGGAAAAGTTGAAAGTATCAATTTTCCTAAAAAAAAAATTCTAAAATAAAAATTTC
*
101687 TAAAACATTTTGGGGAAAGTTGAAAGCATCAATTTCCCTTGAAAATAAAAAGGTTTGAAAA
65 T-----ATTTTGAGGAAAGTTGAAAGCATCAATTTCCCTTGAAAATAAAAAGGTTTGAAAA
101748 AAAAAATTTT
Statistics
Matches: 105, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
127 7 0.07
128 27 0.26
129 9 0.09
130 4 0.04
131 8 0.08
132 1 0.01
137 40 0.38
138 9 0.09
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (132 bp):
ATATTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTAAAAAAAAAATTCTAAAATAAAAATTTCT
ATTTTGAGGAAAGTTGAAAGCATCAATTTCCCTTGAAAATAAAAAGGTTTGAAAACAATATATAT
AT
Found at i:101676 original size:14 final size:15
Alignment explanation
Indices: 101657--101691 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
101647 ATCAATTTTC
101657 CTAAAA-AAAAAATT
1 CTAAAATAAAAAATT
*
101671 CTAAAATAAAAATTT
1 CTAAAATAAAAAATT
101686 CTAAAA
1 CTAAAA
101692 CATTTTGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (15 bp):
CTAAAATAAAAAATT
Found at i:101749 original size:67 final size:68
Alignment explanation
Indices: 101563--101749 Score: 177
Period size: 70 Copynumber: 2.7 Consensus size: 68
101553 TTTTTTTGAA
* * * *
101563 GGAAAGTTGAAAGTATCAATTTCCTTTGAAAATAAAATGGTTTAAAACAATATATATATATATTT
1 GGAAAGTTGAAAGTATCAATTTCCCTTGAAAATAAAAAGGTTTAAAA-AATATATATAAACATTT
101628 TCAGG
65 T-AGG
* * * * * *
101633 GAAAAGTTGAAAGTATCAATTTTCC-T-AAAA-AAAAA-ATTCTAAAATAAAAATTTCTAAAACA
1 GGAAAGTTGAAAGTATCAATTTCCCTTGAAAATAAAAAGGTT-T-AAA-AAATATATAT-AAACA
101694 TTTT-GG
62 TTTTAGG
*
101700 GGAAAGTTGAAAGCATCAATTTCCCTTGAAAATAAAAAGGTTTGAAAAAA
1 GGAAAGTTGAAAGTATCAATTTCCCTTGAAAATAAAAAGGTTT-AAAAAA
101750 AAAATTTTAG
Statistics
Matches: 94, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
66 2 0.02
67 29 0.31
68 14 0.15
69 16 0.17
70 31 0.33
71 2 0.02
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (68 bp):
GGAAAGTTGAAAGTATCAATTTCCCTTGAAAATAAAAAGGTTTAAAAAATATATATAAACATTTT
AGG
Found at i:101791 original size:62 final size:60
Alignment explanation
Indices: 101688--101908 Score: 156
Period size: 61 Copynumber: 3.7 Consensus size: 60
101678 AAAAATTTCT
* * * * * *
101688 AAAACATTTTG-GGGAAAGTTGAAAGCATCAATTTCCCTTGAAAATAAAAAGGTTT-GAAAA
1 AAAACAATTTGAGGAAAAGTTGGAAGTATCAATTTTCCTTGAAAATAAAAA--TTTAAAAAA
* *
101748 AAAA-AATTTTAGGAAAAAGTTGGAAGTATCAAATTTTCCTTG-AAATTAAAATTTAAAAAAA
1 AAAACAATTTGAGG-AAAAGTTGGAAGTATC-AATTTTCCTTGAAAATAAAAATTT-AAAAAA
**
101809 AAAAGCAATTTGAGGAAAAGTTGGAAGTA-CTAATTTTCCTT---AA-AAAGTTTGTAAAAAA
1 AAAA-CAATTTGAGGAAAAGTTGGAAGTATC-AATTTTCCTTGAAAATAAAAATT-TAAAAAA
* * *
101867 AAAA-AACGTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAACAA---TTTGAGGAAAAGTTGGAAGTATCAATTTTCCTT
101909 ATACAAAAGT
Statistics
Matches: 133, Mismatches: 16, Indels: 25
0.76 0.09 0.14
Matches are distributed among these distances:
56 2 0.02
58 14 0.11
59 38 0.29
60 7 0.05
61 40 0.30
62 24 0.18
63 8 0.06
ACGTcount: A:0.48, C:0.08, G:0.15, T:0.30
Consensus pattern (60 bp):
AAAACAATTTGAGGAAAAGTTGGAAGTATCAATTTTCCTTGAAAATAAAAATTTAAAAAA
Done.