Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 1 of 318
Found at i:231 original size:54 final size:54
Alignment explanation
Indices: 50--244 Score: 225
Period size: 55 Copynumber: 3.6 Consensus size: 54
40 CTTAGCATTA
* * * * * *
50 CCATGTCTTGACATGGTCTTACGTGGTATCATTGCTTTATA-AACTCATCAATT
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
* * *
103 CCATGCCTTGGCATGGTCTTACAT-AGGA-CCTTTACCTTATAGTAACTCATCAATG
1 CCATGCCTTGACATGGTCTTACATGA-TATCC-TTGCCTTATAG-AACTCATCAATG
* * *
158 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
*
212 CCATGCCTTGGCATGGTCTTACATGATATCCTT
1 CCATGCCTTGACATGGTCTTACATGATATCCTT
245 ATCTTACCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
52 1 0.01
53 30 0.25
54 41 0.35
55 43 0.36
56 3 0.03
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
Found at i:2980 original size:985 final size:985
Alignment explanation
Indices: 1070--5994 Score: 8528
Period size: 985 Copynumber: 5.0 Consensus size: 985
1060 TTATTATCTC
* * *
1070 TATTCAAGACTAATAACGTCTAATCCCTAGGTTGAATAATTGAGACCTTTCTCTAATTAACACCC
1 TATTCAAGACTAATAACGTCTAATCCCTAGATTGAATAATTGAGACTTTTCTCCAATTAACACCC
* * *
1135 TAGGGTTGCATTAACTCGATCTATTGATCCCCTTATTAGGTTTCACCCTAATCCGAAAAAATCTT
66 TAGGGTTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTGACAAAATCTT
* * * *
1200 GTCACCCTATCTCTCGGC-TCGCAATCAACTCCGCTTAATTATGACAAATGTACTCTTAGACAGG
131 ATCACCCTATCTTTAGGCAT-GCAATCAACTCCGCTTAATTATGACAATTGTACTCTTAGACAGG
1264 GTCTGTTCCTCCTCTGAATAAGAGCTTATCTTGAATCAGTATCCTGGGATATCAAAACAAGAATT
195 GTCTGTTCCTCCTCTGAATAAGAGCTTATCTTGAATCAGTATCCTGGGATATCAAAACAAGAATT
1329 AAGAACACATAATTAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAACAAGATTC
260 AAGAACACATAATTAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAACAAGATTC
*
1394 GTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAACTAAACAGGAAAACATCT
325 GTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAACTAAAGAGGAAAACATCT
*
1459 CGGAAGAATAATGAATACAAAACATAAAGAAAACCCAAAACTCCTGAAGGGAAATTGAGGGGAGA
390 CAGAAGAATAATGAATACAAAACATAAAGAAAACCCAAAACTCCTGAAGGGAAATTGAGGGGAGA
1524 TCTTCAGTCTTGATGATGAATCTGGCTTCTGAGATAGATCAGTCGGCTTTCTTCGAGTAATTCCT
455 TCTTCAGTCTTGATGATGAATCTGGCTTCTGAGATAGATCAGTCGGCTTTCTTCGAGTAATTCCT
1589 TCCTTCCTTTCTTCCTCTGTGTTCCCCTTTCTTCCTCCTCTAGGGTGTATTTATAGGCTTTGGAA
520 TCCTTCCTTTCTTCCTCTGTGTTCCCCTTTCTTCCTCCTCTAGGGTGTATTTATAGGCTTTGGAA
1654 TGCCTACGAGCCCTCAAAAGTGGCCTTTTCTGAATTAGACTCAACTTGGGCTCGGCAGGGACACG
585 TGCCTACGAGCCCTCAAAAGTGGCCTTTTCTGAATTAGACTCAACTTGGGCTCGGCAGGGACACG
1719 CCCGTGTGCGATTACTTCAGGCCGTGTTCGAGCATGTTAGAATGGCACGGGCGTGTGTTCTACCC
650 CCCGTGTGCGATTACTTCAGGCCGTGTTCGAGCATGTTAGAATGGCACGGGCGTGTGTTCTACCC
* *
1784 GTGTGAGTTGTGCTTCGATTCTGCCAAATTGACACGACCGTGTGAGATACCCGTGTGAGGAAGTC
715 GTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGACCGTGTGAGATGCCCGTGTGAGGAAGTC
*
1849 TAGGCCGTGTTAATTTCGTATTTTGGCCCATTTTCTCTGTTTTTGGCCCATTTCTCGTTCCTTTC
780 TAAGCCGTGTTAATTTCGTATTTTGGCCCATTTTCTCTGTTTTTGGCCCATTTCTCGTTCCTTTC
* *
1914 GCTCTACTATGCTCACTTAAGTATAAATCATGAAATTAAGGCATTAAGACCATCGAATCCACCAA
845 GCTCTCCTATGCTCACTTAAGTATAAATCATGAAATTAAGGCATTAGGACCATCGAATCCACCAA
* *
1979 TTCTGAGGAAAAATCATCCAAAAAATAAGTTAAGCATGGGTTAAAAATATGTATAAATTACAGTT
910 TTCTGAGGAAAAATCATCCAAAAAATACGTTAAGCATGGGTTAAAAATATGTATAAATTACGGTT
*
2044 TATCATATCCT
975 TATCATATTCT
2055 TATTCAAGACTAATAACGTCTAATCCCTAGATTGAATAATTGAGACTTTTCTCCAATTAACACCC
1 TATTCAAGACTAATAACGTCTAATCCCTAGATTGAATAATTGAGACTTTTCTCCAATTAACACCC
2120 TAGGGTTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTGACAAAATCTT
66 TAGGGTTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTGACAAAATCTT
*
2185 ATCACCCTATCTTTAGGCATGCAATCAACTCCGCTTAATTATGACAAATGTACTCTTAGACAGGG
131 ATCACCCTATCTTTAGGCATGCAATCAACTCCGCTTAATTATGACAATTGTACTCTTAGACAGGG
2250 TCTGTTCCTCCTCTGAATAAGAGCTTATCTTGAATCAGTATCCTGGGATATCAAAACAAGAATTA
196 TCTGTTCCTCCTCTGAATAAGAGCTTATCTTGAATCAGTATCCTGGGATATCAAAACAAGAATTA
2315 AGAACACATAATTAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAACAAGATTCG
261 AGAACACATAATTAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAACAAGATTCG
2380 TCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAACTAAAGAGGAAAACATCTC
326 TCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAACTAAAGAGGAAAACATCTC
*
2445 GGAAGAATAATGAATACAAAACATAAAGAAAACCCAAAACTCCTGAAGGGAAATTGAGGGGAGAT
391 AGAAGAATAATGAATACAAAACATAAAGAAAACCCAAAACTCCTGAAGGGAAATTGAGGGGAGAT
2510 CTTCAGTCTTGATGATGAATCTGGCTTCTGAGATAGATCAGTCGGCTTTCTTCGAGTAATTCCTT
456 CTTCAGTCTTGATGATGAATCTGGCTTCTGAGATAGATCAGTCGGCTTTCTTCGAGTAATTCCTT
2575 CCTTCCTTTCTTCCTCTGTGTTCCCCTTTCTTCCTCCTCTAGGGTGTATTTATAGGCTTTGGAAT
521 CCTTCCTTTCTTCCTCTGTGTTCCCCTTTCTTCCTCCTCTAGGGTGTATTTATAGGCTTTGGAAT
2640 GCCTACGAGCCCTCAAAAGTGGCCTTTTCTGAATTAGACTCAACTTGGGCTCGGCAGGGACACGC
586 GCCTACGAGCCCTCAAAAGTGGCCTTTTCTGAATTAGACTCAACTTGGGCTCGGCAGGGACACGC
* * *
2705 CCGTGTGCGATTACTTCAGGTCGTGTTTGAGCATGTTAGAATGGTACGGGCGTGTGTTCTACCCG
651 CCGTGTGCGATTACTTCAGGCCGTGTTCGAGCATGTTAGAATGGCACGGGCGTGTGTTCTACCCG
*
2770 TGTGAGTCGTACTTCGATTCTGCCAAATTGACACGACCGTGTGAGATGCCCGTGTGAGGAAGTCT
716 TGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGACCGTGTGAGATGCCCGTGTGAGGAAGTCT
* * *
2835 AAGCCGTGTTAATTTCGTATTTTGGCCTATTTTATCTGTTTTTGGCCTATTTCTCGTTCCTTTCG
781 AAGCCGTGTTAATTTCGTATTTTGGCCCATTTTCTCTGTTTTTGGCCCATTTCTCGTTCCTTTCG
2900 CTCTCCTATGCTCACTTAAGTATAAATCATGAAATTAAGGCATTAGGACCATCGAATCCACCAAT
846 CTCTCCTATGCTCACTTAAGTATAAATCATGAAATTAAGGCATTAGGACCATCGAATCCACCAAT
*
2965 TCTGAGGAAAAATCATCCAAAAAATAAGTTAAGCATGGGTTAAAAATATGTATAAATTACGGTTT
911 TCTGAGGAAAAATCATCCAAAAAATACGTTAAGCATGGGTTAAAAATATGTATAAATTACGGTTT
3030 ATCATATTCT
976 ATCATATTCT
*
3040 TATTCAAGACTAATAACGTCTAATCCCTAGATTGAATAATTGAGACTTTCCTCCAATTAACACCC
1 TATTCAAGACTAATAACGTCTAATCCCTAGATTGAATAATTGAGACTTTTCTCCAATTAACACCC
3105 TAGGGTTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTGACAAAATCTT
66 TAGGGTTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTGACAAAATCTT
3170 ATCACCCTATCTTTAGGCATGCAATCAACTCCGCTTAATTATGACAATTGTACTCTTAGACAGGG
131 ATCACCCTATCTTTAGGCATGCAATCAACTCCGCTTAATTATGACAATTGTACTCTTAGACAGGG
3235 TCTGTTCCTCCTCTGAATAAGAGCTTATCTTGAATCAGTATCCTGGGATATCAAAACAAGAATTA
196 TCTGTTCCTCCTCTGAATAAGAGCTTATCTTGAATCAGTATCCTGGGATATCAAAACAAGAATTA
3300 AGAACACATAATTAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAACAAGATTCG
261 AGAACACATAATTAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAACAAGATTCG
* *
3365 TCTTAGGTTTCATTCCCCTCAGGTATTTAGGGGATTTAGTTCATAACTAAAGAGGAAAACATCTT
326 TCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAACTAAAGAGGAAAACATCTC
*
3430 AGAAGAATAATGAATACAAAACATAAAGAAAACACAAAACTCCTGAAGGGAAATTGAGGGGAGAT
391 AGAAGAATAATGAATACAAAACATAAAGAAAACCCAAAACTCCTGAAGGGAAATTGAGGGGAGAT
*
3495 CTTCAGTCTTGATGATGAATCTGGCTTCTGAGATGGATCAGTCGGCTTTCTTCGAGTAATTCCTT
456 CTTCAGTCTTGATGATGAATCTGGCTTCTGAGATAGATCAGTCGGCTTTCTTCGAGTAATTCCTT
*
3560 CCTTCCTTTCTTCCTCTGTGTTCCCCTTTCTTCCTCCTATAGGGTGTATTTATAGGCTTTGGAAT
521 CCTTCCTTTCTTCCTCTGTGTTCCCCTTTCTTCCTCCTCTAGGGTGTATTTATAGGCTTTGGAAT
*
3625 GCCTACGAGCCCTCAAAAGTGGCATTTTCTGAATTAGACTCAACTTGGGCTCGGCAGGGACACGC
586 GCCTACGAGCCCTCAAAAGTGGCCTTTTCTGAATTAGACTCAACTTGGGCTCGGCAGGGACACGC
*
3690 CCGTGTACGATTACTTCAGGCCGTGTTCGAGCATGTTAGAATGGCACGGGCGTGTGTTCTACCCG
651 CCGTGTGCGATTACTTCAGGCCGTGTTCGAGCATGTTAGAATGGCACGGGCGTGTGTTCTACCCG
*
3755 TATGAGTCGTGCTTCGATTCTGCCAAATTGACACGACCGTGTGAGATGCCCGTGTGAGGAAGTCT
716 TGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGACCGTGTGAGATGCCCGTGTGAGGAAGTCT
*
3820 AAGCCGTGTTAATTTCGTATTTTGGCCCATTTTCTCTGTTTTTGGCCAATTTCTCGTTCCTTTCG
781 AAGCCGTGTTAATTTCGTATTTTGGCCCATTTTCTCTGTTTTTGGCCCATTTCTCGTTCCTTTCG
*
3885 CTCTCCTATGCTCACTTAAGTATAAATCATGAAATTAATGCATTAGGACCATCGAATCCACCAAT
846 CTCTCCTATGCTCACTTAAGTATAAATCATGAAATTAAGGCATTAGGACCATCGAATCCACCAAT
3950 TCTGAGGAAAAATCATCCAAAAAATACGTTAAGCATGGGTTAAAAATATGTATAAATTACGGTTT
911 TCTGAGGAAAAATCATCCAAAAAATACGTTAAGCATGGGTTAAAAATATGTATAAATTACGGTTT
4015 ATCATATTCT
976 ATCATATTCT
* *
4025 TATTCAAGACTAATAACGTCTAATCCCTAGATTGAATAATTGAGACTTTCCTCTAATTAACACCC
1 TATTCAAGACTAATAACGTCTAATCCCTAGATTGAATAATTGAGACTTTTCTCCAATTAACACCC
4090 TAGGGTTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTGACAAAATCTT
66 TAGGGTTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTGACAAAATCTT
*
4155 ATCACCCTATCTTTAAGCATGCAATCAACTCCGCTTAATTATGACAATTGTACTCTTAGACAGGG
131 ATCACCCTATCTTTAGGCATGCAATCAACTCCGCTTAATTATGACAATTGTACTCTTAGACAGGG
4220 TCTGTTCCTCCTCTGAATAAGAGCTTATCTTGAATCAGTATCCTGGGATATCAAAACAAGAATTA
196 TCTGTTCCTCCTCTGAATAAGAGCTTATCTTGAATCAGTATCCTGGGATATCAAAACAAGAATTA
*
4285 AGAACACATAATTAAGAACAAGTTAAATATTTATCATACAATTCAGAAAAAAATAACAAGATTCG
261 AGAACACATAATTAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAACAAGATTCG
* *
4350 TCTTAGGTTTCATTCGCCTTAGGTATTTAGGGGATTTAGTTCATAACTAAAGAGGAAAACATCTT
326 TCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAACTAAAGAGGAAAACATCTC
*
4415 AGAAGAATAATGAATACAAAACATAAAGAAAACACAAAACTCCTGAAGGGAAATTGAGGGGAGAT
391 AGAAGAATAATGAATACAAAACATAAAGAAAACCCAAAACTCCTGAAGGGAAATTGAGGGGAGAT
4480 CTTCAGTCTTGATGATGAATCTGGCTTCTGAGATAGATCAGTCGGCTTTCTTCGAGTAATTCCTT
456 CTTCAGTCTTGATGATGAATCTGGCTTCTGAGATAGATCAGTCGGCTTTCTTCGAGTAATTCCTT
*
4545 CCTTCCTTTCTTCCTCTGTGTTCCCCTTTCTTCCTCCTATAGGGTGTATTTATAGGCTTTGGAAT
521 CCTTCCTTTCTTCCTCTGTGTTCCCCTTTCTTCCTCCTCTAGGGTGTATTTATAGGCTTTGGAAT
*
4610 GCCTACGAGCCCTCAAAAGTGGCATTTTCTGAATTAGACTCAACTTGGGCTCGGCAGGGACACGC
586 GCCTACGAGCCCTCAAAAGTGGCCTTTTCTGAATTAGACTCAACTTGGGCTCGGCAGGGACACGC
* *
4675 CTGTGTACGATTACTTCAGGCCGTGTTCGAGCATGTTAGAATGGCACGGGCGTGTGTTCTACCCG
651 CCGTGTGCGATTACTTCAGGCCGTGTTCGAGCATGTTAGAATGGCACGGGCGTGTGTTCTACCCG
*
4740 TATGAGTCGTGCTTCGATTCTGCCAAATTGACACGACCGTGTGAGATGCCCGTGTGAGGAAGTCT
716 TGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGACCGTGTGAGATGCCCGTGTGAGGAAGTCT
*
4805 AGGCCGTGTTAATTTCGTATTTTGGCCCATTTTCTCTGTTTTTGGCCCATTTCTCGTTCCTTTCG
781 AAGCCGTGTTAATTTCGTATTTTGGCCCATTTTCTCTGTTTTTGGCCCATTTCTCGTTCCTTTCG
4870 CTCTCCTATGCTCACTTAAGTATAAATCATGAAATTAAGGCATTAGGACCATCGAATCCACCAAT
846 CTCTCCTATGCTCACTTAAGTATAAATCATGAAATTAAGGCATTAGGACCATCGAATCCACCAAT
*
4935 TTTGAGGAAAAATCATCCAAAAAATACGTTAAGCATGGGTTAAAAATATGTATAAATTACGGTTT
911 TCTGAGGAAAAATCATCCAAAAAATACGTTAAGCATGGGTTAAAAATATGTATAAATTACGGTTT
5000 ATCATATTCT
976 ATCATATTCT
5010 TATTCAAGACTAATAACGTCTAATCCCTAGATTGAATAATTGAGACTTTTCTCCAATTAACACCC
1 TATTCAAGACTAATAACGTCTAATCCCTAGATTGAATAATTGAGACTTTTCTCCAATTAACACCC
5075 TAGGGTTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTGACAAAATCTT
66 TAGGGTTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTGACAAAATCTT
5140 ATCACCCTATCTTTAGGCATGCAATCAACTCCGCTTAATTATGACAATTGTACTCTTAGACAGGG
131 ATCACCCTATCTTTAGGCATGCAATCAACTCCGCTTAATTATGACAATTGTACTCTTAGACAGGG
* * * * * *
5205 TCTATTCCTCCTCTGAATAAGAGCTTAACTTGAATCAATATCCTAGAACATCAAAACAAGAATTA
196 TCTGTTCCTCCTCTGAATAAGAGCTTATCTTGAATCAGTATCCTGGGATATCAAAACAAGAATTA
* * *
5270 AGAACATATAATTAAGAACAAGTCAAATATTTATTATACAATTCAGAAAATAATAACAAGATTCG
261 AGAACACATAATTAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAACAAGATTCG
* * * *
5335 TCTTAGGTTTCATTCCCTTTAGGTATTTAGGGGATTTAGTTCATAATTAAAAAGGTAAACATCTC
326 TCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAACTAAAGAGGAAAACATCTC
*
5400 AGAAGAATAATGAATACAAAACATAAAGAAAACCCAAAACTCTTGAAGGGAAATTGAGGGGAGAT
391 AGAAGAATAATGAATACAAAACATAAAGAAAACCCAAAACTCCTGAAGGGAAATTGAGGGGAGAT
* * * * * *
5465 TTTCAGTCTTGATGATGAATCCGGCTTCTAAGAT-GAATCAATCAGCTTTCTTCGAGTAAGTCCT
456 CTTCAGTCTTGATGATGAATCTGGCTTCTGAGATAG-ATCAGTCGGCTTTCTTCGAGTAATTCCT
* * * * *
5529 TTCTTCC--TC--CCTGTGTGTTTCATCC--TCTTCCT--TC-AGGGTGTGTTTATAGGCTTTAG
520 TCCTTCCTTTCTTCCTCTGTG-TTC-CCCTTTCTTCCTCCTCTAGGGTGTATTTATAGGCTTTGG
** * ** *
5585 AATGCCTAAAAGCCCTCAAAATTATCCTTTTTCT-AATTGGACTCAACTTGGGCTCGGCAGAGAC
583 AATGCCTACGAGCCCTCAAAAGTGGCC-TTTTCTGAATTAGACTCAACTTGGGCTCGGCAG-G--
* * * *
5649 ACGACCATGTCACACGGCTGTGTGCGATTACTTCAGGCCGTGCTCGAGCCTATTAGAATGGCACG
644 --GA-CA---CGC-C--C-GTGTGCGATTACTTCAGGCCGTGTTCGAGCATGTTAGAATGGCACG
* * * * *
5714 GGCGTGTGGTCCACCCGTGTGAGTCGTGCTTCGATTCTGCCAATTTGACACGGCCGTGTG-GTCT
699 GGCGTGTGTTCTACCCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGACCGTGTGAG-AT
* * * ** * *
5778 GCCCGTGTAAGGAAGTCCAAGCCGTGTTGATTTCGTACGTTGGTCCATTTTCTCCGTTTTTGGCC
763 GCCCGTGTGAGGAAGTCTAAGCCGTGTTAATTTCGTATTTTGGCCCATTTTCTCTGTTTTTGGCC
* * * * * *
5843 CGTTTCTCGTTCATTTCACTCTCTTATACTCA-TCTAAGTATAAAACATGAAATTAAGGCATTAG
828 CATTTCTCGTTCCTTTCGCTCTCCTATGCTCACT-TAAGTATAAATCATGAAATTAAGGCATTAG
* * * * * * *
5907 GAGCATCGAATTCACTAATTCTAAGGAAAAATCATCCATAAAATGCGTTAAGCATGGGGTAAAAA
892 GACCATCGAATCCACCAATTCTGAGGAAAAATCATCCAAAAAATACGTTAAGCATGGGTTAAAAA
*
5972 TATGTATAAATTACTGTTTATCA
957 TATGTATAAATTACGGTTTATCA
5995 AATACCCCCA
Statistics
Matches: 3790, Mismatches: 130, Indels: 34
0.96 0.03 0.01
Matches are distributed among these distances:
978 66 0.02
979 8 0.00
981 14 0.00
982 3 0.00
983 6 0.00
984 3 0.00
985 3394 0.90
986 1 0.00
987 2 0.00
988 1 0.00
990 2 0.00
991 290 0.08
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (985 bp):
TATTCAAGACTAATAACGTCTAATCCCTAGATTGAATAATTGAGACTTTTCTCCAATTAACACCC
TAGGGTTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTGACAAAATCTT
ATCACCCTATCTTTAGGCATGCAATCAACTCCGCTTAATTATGACAATTGTACTCTTAGACAGGG
TCTGTTCCTCCTCTGAATAAGAGCTTATCTTGAATCAGTATCCTGGGATATCAAAACAAGAATTA
AGAACACATAATTAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAACAAGATTCG
TCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAACTAAAGAGGAAAACATCTC
AGAAGAATAATGAATACAAAACATAAAGAAAACCCAAAACTCCTGAAGGGAAATTGAGGGGAGAT
CTTCAGTCTTGATGATGAATCTGGCTTCTGAGATAGATCAGTCGGCTTTCTTCGAGTAATTCCTT
CCTTCCTTTCTTCCTCTGTGTTCCCCTTTCTTCCTCCTCTAGGGTGTATTTATAGGCTTTGGAAT
GCCTACGAGCCCTCAAAAGTGGCCTTTTCTGAATTAGACTCAACTTGGGCTCGGCAGGGACACGC
CCGTGTGCGATTACTTCAGGCCGTGTTCGAGCATGTTAGAATGGCACGGGCGTGTGTTCTACCCG
TGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGACCGTGTGAGATGCCCGTGTGAGGAAGTCT
AAGCCGTGTTAATTTCGTATTTTGGCCCATTTTCTCTGTTTTTGGCCCATTTCTCGTTCCTTTCG
CTCTCCTATGCTCACTTAAGTATAAATCATGAAATTAAGGCATTAGGACCATCGAATCCACCAAT
TCTGAGGAAAAATCATCCAAAAAATACGTTAAGCATGGGTTAAAAATATGTATAAATTACGGTTT
ATCATATTCT
Found at i:8551 original size:21 final size:21
Alignment explanation
Indices: 8488--8551 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
8478 AGGCTAACTA
8488 AAGCACACAAGTGCTAAACGG
1 AAGCACACAAGTGCTAAACGG
*** *
8509 AAGC-GTGAAG-GCT-AACTG
1 AAGCACACAAGTGCTAAACGG
8527 AAGCACACAAGTGCTAAACGG
1 AAGCACACAAGTGCTAAACGG
8548 AAGC
1 AAGC
8552 CCGAAGGCTA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 8 0.25
19 6 0.19
20 6 0.19
21 12 0.38
ACGTcount: A:0.41, C:0.22, G:0.27, T:0.11
Consensus pattern (21 bp):
AAGCACACAAGTGCTAAACGG
Found at i:8584 original size:39 final size:39
Alignment explanation
Indices: 8430--8569 Score: 208
Period size: 39 Copynumber: 3.6 Consensus size: 39
8420 ATCGTGATCT
* * * *
8430 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
8469 AAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
**
8508 GAAGCGTGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
8547 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
8570 TTATCAGAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.39, C:0.23, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:12074 original size:37 final size:37
Alignment explanation
Indices: 12013--12158 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
12003 TACGTATGAT
* *
12013 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
12048 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
12085 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
12122 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
12159 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:12175 original size:46 final size:46
Alignment explanation
Indices: 12122--12390 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
12112 TAAGTGTAGC
* **
12122 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
12168 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
12214 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
12266 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
12312 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
12364 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
12391 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:12241 original size:52 final size:52
Alignment explanation
Indices: 12165--12384 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
12155 TAGCTAAAGC
* *
12165 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
12218 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
12270 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
12316 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
12368 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
12385 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:12287 original size:98 final size:98
Alignment explanation
Indices: 12122--12390 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
12112 TAAGTGTAGC
* * *
12122 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
12187 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
12221 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
12286 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
12319 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
12384 GATCAGA
66 GATCAGA
12391 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:15563 original size:49 final size:50
Alignment explanation
Indices: 15508--15711 Score: 241
Period size: 49 Copynumber: 4.0 Consensus size: 50
15498 TTCGTTTTCT
*
15508 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
15557 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
15606 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * *
15664 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
15712 GTTCACATGT
Statistics
Matches: 136, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
49 74 0.54
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 39 0.29
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:15678 original size:58 final size:59
Alignment explanation
Indices: 15592--15710 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
15582 TACACGAAAT
15592 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
15650 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
15709 CA
1 CA
15711 TGTTCACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 54 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:15691 original size:28 final size:28
Alignment explanation
Indices: 15601--15691 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
15591 TCACATATCA
15601 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
* * **
15629 CTTACACGGAAT-CACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAGC-TATGGT
15659 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
15687 CTTAC
1 CTTAC
15692 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
CTTACCGATGCCATAGCCCAGCTATGGT
Found at i:17017 original size:37 final size:37
Alignment explanation
Indices: 16956--17101 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
16946 TACGTATGAT
* *
16956 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
16991 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
17028 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
17065 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
17102 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:17118 original size:46 final size:46
Alignment explanation
Indices: 17065--17333 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
17055 TAAGTGTAGC
* **
17065 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
17111 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
17157 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
17209 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
17255 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
17307 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
17334 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:17184 original size:52 final size:52
Alignment explanation
Indices: 17108--17327 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
17098 TAGCTAAAGC
* *
17108 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
17161 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
17213 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
17259 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
17311 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
17328 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:17230 original size:98 final size:98
Alignment explanation
Indices: 17065--17333 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
17055 TAAGTGTAGC
* * *
17065 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
17130 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
17164 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
17229 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
17262 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
17327 GATCAGA
66 GATCAGA
17334 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:22214 original size:255 final size:255
Alignment explanation
Indices: 21761--22221 Score: 877
Period size: 255 Copynumber: 1.8 Consensus size: 255
21751 GCATTTAGCT
* *
21761 CCACATGCAACGCCTCGTCCAACTTCCGCTTATTTGCTAAAAGTTCCTTTAAAAATTTTATTGCG
1 CCACATGCAACGCCTCGTCCAACTTCCACTTATTTGCTAAAAGCTCCTTTAAAAATTTTATTGCG
21826 TTTGGCATCTGTAACAGAGCTTCAATAAACAGTAAGTTAATATGTAATTTTTTTAAGAGTTTAAG
66 TTTGGCATCTGTAACAGAGCTTCAATAAACAGTAAGTTAATATGTAATTTTTTTAAGAGTTTAAG
*
21891 GAATTTACCAAATTGTTCATCTGAGCGGTCTTTCCTTGTCGCGTTGGGGTATGGCACACGAGGTT
131 GAATTTACCAAATTGTTCATCTGAGCGGTCTTTCCTTGTCGCGTTGGGGTATGGCACACGACGTT
21956 TATATTCTACATTCACTGGTTTGTTTTTATTATGACCTTCCTCACCTTGACGTCTGCTCA
196 TATATTCTACATTCACTGGTTTGTTTTTATTATGACCTTCCTCACCTTGACGTCTGCTCA
22016 CCACATGCAACGCCTCGTCCAACTTCCACTTATTTGCTAAAAGCTCCTTTAAAAATTTTATTGCG
1 CCACATGCAACGCCTCGTCCAACTTCCACTTATTTGCTAAAAGCTCCTTTAAAAATTTTATTGCG
* *
22081 TTTGGCATCTGTGACAGAGCTTCAATAAACGGTAAGTTAATATGTAATTTTTTTAAGAGTTTAAG
66 TTTGGCATCTGTAACAGAGCTTCAATAAACAGTAAGTTAATATGTAATTTTTTTAAGAGTTTAAG
22146 GAATTTACCAAATTGTTCATCTGAGCGGTCTTTCCTTGTCGCGTTGGGGTATGGCACACGACGTT
131 GAATTTACCAAATTGTTCATCTGAGCGGTCTTTCCTTGTCGCGTTGGGGTATGGCACACGACGTT
22211 TATATTCTACA
196 TATATTCTACA
22222 CTGGTTCTGG
Statistics
Matches: 201, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
255 201 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (255 bp):
CCACATGCAACGCCTCGTCCAACTTCCACTTATTTGCTAAAAGCTCCTTTAAAAATTTTATTGCG
TTTGGCATCTGTAACAGAGCTTCAATAAACAGTAAGTTAATATGTAATTTTTTTAAGAGTTTAAG
GAATTTACCAAATTGTTCATCTGAGCGGTCTTTCCTTGTCGCGTTGGGGTATGGCACACGACGTT
TATATTCTACATTCACTGGTTTGTTTTTATTATGACCTTCCTCACCTTGACGTCTGCTCA
Found at i:25304 original size:112 final size:112
Alignment explanation
Indices: 25107--25337 Score: 417
Period size: 112 Copynumber: 2.1 Consensus size: 112
25097 ACCCATTTTG
*
25107 TCCAACGCCCGCTTATCAACCATGTTTAAATTCCTTAGCAAGAAAATCAAGCGCCTCTTTGTTCC
1 TCCAACACCCGCTTATCAACCATGTTTAAATTCCTTAGCAAGAAAATCAAGCGCCTCTTTGTTCC
* *
25172 CGCCTCTGGTGGCCGTTCGTCATCGGTTCATCGCCTCTAGTGAGTTT
66 CGCCTCTGGTGGCCATTCGTCATCGGTTCATCGCCTCCAGTGAGTTT
*
25219 TCCAACACCCGTTTATCAACCATGTTTAAATTCCTTAGCAAGAAAATCAAGCGCCTCTTTGTTCC
1 TCCAACACCCGCTTATCAACCATGTTTAAATTCCTTAGCAAGAAAATCAAGCGCCTCTTTGTTCC
*
25284 CGCCTCTGGTGGCCATTCGTCATCGGTTCGTCGCCTCCAGTGAGTTT
66 CGCCTCTGGTGGCCATTCGTCATCGGTTCATCGCCTCCAGTGAGTTT
25331 TCCAACA
1 TCCAACA
25338 AATATGGGAA
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 114 1.00
ACGTcount: A:0.21, C:0.31, G:0.18, T:0.31
Consensus pattern (112 bp):
TCCAACACCCGCTTATCAACCATGTTTAAATTCCTTAGCAAGAAAATCAAGCGCCTCTTTGTTCC
CGCCTCTGGTGGCCATTCGTCATCGGTTCATCGCCTCCAGTGAGTTT
Found at i:25887 original size:27 final size:27
Alignment explanation
Indices: 25834--25922 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
25824 GTGTCGACGA
* * * *
25834 CACTTCGGTGCAAATTAGCGATTGTGG
1 CACTTCAGTGCAAATCAGTGATAGTGG
*
25861 CACTTCAGTGCAACTCAGTGATAGTGG
1 CACTTCAGTGCAAATCAGTGATAGTGG
* * * *
25888 CACCTCAATGCAATTCGGTGATAGTGG
1 CACTTCAGTGCAAATCAGTGATAGTGG
*
25915 CTCTTCAG
1 CACTTCAG
25923 AGCATTTCAT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (27 bp):
CACTTCAGTGCAAATCAGTGATAGTGG
Found at i:26083 original size:22 final size:22
Alignment explanation
Indices: 26058--26102 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
26048 AATATGGTAA
*
26058 TATTGTAAGTGGAAATGAGCAT
1 TATTGTAAATGGAAATGAGCAT
26080 TATTGTAAATGGAAATGAGCAT
1 TATTGTAAATGGAAATGAGCAT
26102 T
1 T
26103 TAATGATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.33
Consensus pattern (22 bp):
TATTGTAAATGGAAATGAGCAT
Found at i:26926 original size:21 final size:21
Alignment explanation
Indices: 26879--26931 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
26869 CTTAGGGCAT
*
26879 AAGAAAATAAAAGGGAAAGAA
1 AAGAAAAAAAAAGGGAAAGAA
*
26900 AGGAAAAAAAAAGGGACAA-AA
1 AAGAAAAAAAAAGGGA-AAGAA
*
26921 AAGAAAGAAAA
1 AAGAAAAAAAA
26932 GGAAAAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.74, C:0.02, G:0.23, T:0.02
Consensus pattern (21 bp):
AAGAAAAAAAAAGGGAAAGAA
Found at i:26961 original size:34 final size:31
Alignment explanation
Indices: 26893--26965 Score: 94
Period size: 34 Copynumber: 2.3 Consensus size: 31
26883 AAATAAAAGG
*
26893 GAAAG-AAAGGAAAAAAAAAGGGACAAAAAA
1 GAAAGAAAAGGAAAAAAAAAGAGACAAAAAA
*
26923 GAAAGAAAAGGAAAAAGAAGAAGAGAGAGAAAAA
1 GAAAGAAAAGGAAAAA-AA-AAGAGACA-AAAAA
26957 GAAAGAAAA
1 GAAAGAAAA
26966 ATCACTCATG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 5 0.14
31 10 0.27
32 2 0.05
33 6 0.16
34 14 0.38
ACGTcount: A:0.73, C:0.01, G:0.26, T:0.00
Consensus pattern (31 bp):
GAAAGAAAAGGAAAAAAAAAGAGACAAAAAA
Found at i:28195 original size:19 final size:19
Alignment explanation
Indices: 28156--28195 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
28146 CTCAGGATAT
*
28156 TTTTTAGCTTTAATTATTA
1 TTTTTAGCTTTAATTAATA
28175 TTTTTA-CTTTAATTTAATA
1 TTTTTAGCTTTAA-TTAATA
28194 TT
1 TT
28196 GAGTATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTTAGCTTTAATTAATA
Found at i:31379 original size:13 final size:13
Alignment explanation
Indices: 31361--31386 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31351 GCAGGGGAGA
31361 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
31374 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
31387 GGGAAAAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:33560 original size:47 final size:47
Alignment explanation
Indices: 33506--33724 Score: 329
Period size: 47 Copynumber: 4.7 Consensus size: 47
33496 GACCTCAGCA
** * *
33506 TGCTCTCTGA-ATATTAGCACGCCAGTACTCTCTGATTAGCACATTTG
1 TGCTCTCTGATAT-TTAGCACATCAGTGCTCTCTGATTAGCACAATTG
33553 TGCTCTCTGATATTTAGCACATCAGTGCTCTCTGATTAGCACAATTG
1 TGCTCTCTGATATTTAGCACATCAGTGCTCTCTGATTAGCACAATTG
33600 TGCTCTCTGATATTTAGCACATCAGTGCTCTCTGATTAGCACAATTG
1 TGCTCTCTGATATTTAGCACATCAGTGCTCTCTGATTAGCACAATTG
* * *
33647 TGCTCTCTGATATTTAGCACGTTAGTGCTCTCTGATTAGCACATTTG
1 TGCTCTCTGATATTTAGCACATCAGTGCTCTCTGATTAGCACAATTG
*
33694 TGCTCTCTG-TA--TAGCACTTCAGTGCTCTCTG
1 TGCTCTCTGATATTTAGCACATCAGTGCTCTCTG
33725 TTCATTAGTG
Statistics
Matches: 162, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
44 18 0.11
46 2 0.01
47 140 0.86
48 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (47 bp):
TGCTCTCTGATATTTAGCACATCAGTGCTCTCTGATTAGCACAATTG
Found at i:33725 original size:22 final size:23
Alignment explanation
Indices: 33506--33725 Score: 204
Period size: 22 Copynumber: 9.4 Consensus size: 23
33496 GACCTCAGCA
***
33506 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTG--TATTAGCACATTAG
* *
33531 TACTCTCTG-ATTAGCACATTTG
1 TGCTCTCTGTATTAGCACATTAG
*
33553 TGCTCTCTGATATTTAGCACATCAG
1 TGCTCTCTG-TA-TTAGCACATTAG
33578 TGCTCTCTG-ATTAGCACAATT-G
1 TGCTCTCTGTATTAGCAC-ATTAG
*
33600 TGCTCTCTGATATTTAGCACATCAG
1 TGCTCTCTG-TA-TTAGCACATTAG
33625 TGCTCTCTG-ATTAGCACAATT-G
1 TGCTCTCTGTATTAGCAC-ATTAG
*
33647 TGCTCTCTGATATTTAGCACGTTAG
1 TGCTCTCTG-TA-TTAGCACATTAG
*
33672 TGCTCTCTG-ATTAGCACATTTG
1 TGCTCTCTGTATTAGCACATTAG
33694 TGCTCTCTGTA-TAGCAC-TTCAG
1 TGCTCTCTGTATTAGCACATT-AG
33716 TGCTCTCTGT
1 TGCTCTCTGT
33726 TCATTAGTGC
Statistics
Matches: 165, Mismatches: 15, Indels: 33
0.77 0.07 0.15
Matches are distributed among these distances:
21 2 0.01
22 87 0.53
23 8 0.05
24 7 0.04
25 61 0.37
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (23 bp):
TGCTCTCTGTATTAGCACATTAG
Found at i:36248 original size:13 final size:13
Alignment explanation
Indices: 36230--36257 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36220 AGAGCAGGGG
36230 AGAAAAGAAAGAA
1 AGAAAAGAAAGAA
36243 AGAAAAGAAAGAA
1 AGAAAAGAAAGAA
36256 AG
1 AG
36258 GTGGAAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (13 bp):
AGAAAAGAAAGAA
Found at i:38075 original size:13 final size:13
Alignment explanation
Indices: 38057--38102 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 13
38047 TTTAAGTAAA
38057 TATATTATATTAT
1 TATATTATATTAT
38070 TATATTATCATATTAT
1 TATA-T-T-ATATTAT
*
38086 TATATTATATTAG
1 TATATTATATTAT
38099 TATA
1 TATA
38103 ATTAAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 14 0.48
14 2 0.07
15 2 0.07
16 11 0.38
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (13 bp):
TATATTATATTAT
Found at i:38102 original size:8 final size:8
Alignment explanation
Indices: 38059--38093 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
38049 TAAGTAAATA
38059 TATTATAT
1 TATTATAT
38067 TATTATAT
1 TATTATAT
*
38075 TATCATAT
1 TATTATAT
38083 TATTATAT
1 TATTATAT
38091 TAT
1 TAT
38094 ATTAGTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:39704 original size:2 final size:2
Alignment explanation
Indices: 39697--39741 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
39687 ATTACTTATA
39697 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
39739 TG T
1 TG T
39742 AATGACCTGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:39827 original size:11 final size:13
Alignment explanation
Indices: 39811--39843 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
39801 ATTGATTCGT
39811 AAATATTT-TT-A
1 AAATATTTATTAA
39822 AAATATTTATTAA
1 AAATATTTATTAA
39835 AAATATTTA
1 AAATATTTA
39844 CGAAGTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
12 2 0.10
13 10 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATATTTATTAA
Found at i:40474 original size:13 final size:13
Alignment explanation
Indices: 40456--40481 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40446 GCAGGGGAGA
40456 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
40469 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
40482 GGGGAAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:42150 original size:42 final size:46
Alignment explanation
Indices: 42087--42394 Score: 246
Period size: 49 Copynumber: 6.7 Consensus size: 46
42077 CTTCGTTTTC
** *
42087 TCGATGCCATAGTTCAACTATGGTCTTACAC-AT-C-T-TCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGATACATATCACAT-A
*
42130 T-GATGCCATAGCCCAGCTATGGTCTTACAC-AT--AT-TCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGATACATATCACATA
*
42171 TCGATGCCATAGCCCAGCTATAGTCTTACACGTGATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC--GAT-ACATATCACATA
42220 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACG--AT-ACATATCACATA
* * * *
42269 TCGATGTCATAACCCAGCTATGGTCTTACACGAATCACATATCTCA-C
1 TCGATGCCATAGCCCAGCTATGGTCTTACACG-AT-ACATATCACATA
* * * * * *
42316 T-GATGCTATATCCCAGATATGGTCTTATACGGTAGCATAT-ATCACA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGATA-CATATCA-CATA
* * * *
42362 -CTGATGCCATATCCTAGATATGGTCTTATACGA
1 TC-GATGCCATAGCCCAGCTATGGTCTTACACGA
42395 AAATCACTTG
Statistics
Matches: 227, Mismatches: 22, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
41 2 0.01
42 62 0.27
43 1 0.00
44 1 0.00
45 10 0.04
46 25 0.11
47 30 0.13
48 15 0.07
49 81 0.36
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (46 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACGATACATATCACATA
Found at i:42230 original size:91 final size:92
Alignment explanation
Indices: 42122--42342 Score: 261
Period size: 91 Copynumber: 2.4 Consensus size: 92
42112 TTACACATCT
* *
42122 TCACATAATGATGCCATAGCCCAGCTATGGTCTTACAC-AT-AT-TCATATATCGATGCCATAGC
1 TCACAT-ATGATGCCATAGCCCAGCTATGGTCTTACACAATCATATCACATATCGATGCCATAAC
*
42184 CCAGCTATAGTCTTACACGTGATCACATA
65 CCAGCTATAGTCTTACACG-AATCACATA
*
42213 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATCGATGTCA
1 TCACATAT-GATGCCATAGCCCAGCTATGGTCTTACAC--AAT--CATATCACATATCGATGCCA
*
42278 TAACCCAGCTATGGTCTTACACGAATCACATA
61 TAACCCAGCTATAGTCTTACACGAATCACATA
* * * * *
42310 TCTCA-CTGATGCTATATCCCAGATATGGTCTTA
1 TCACATATGATGCCATAGCCCAGCTATGGTCTTA
42343 TACGGTAGCA
Statistics
Matches: 112, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
90 2 0.02
91 35 0.31
94 2 0.02
95 23 0.21
96 1 0.01
97 14 0.12
98 35 0.31
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (92 bp):
TCACATATGATGCCATAGCCCAGCTATGGTCTTACACAATCATATCACATATCGATGCCATAACC
CAGCTATAGTCTTACACGAATCACATA
Found at i:42270 original size:56 final size:49
Alignment explanation
Indices: 42213--42389 Score: 177
Period size: 47 Copynumber: 3.7 Consensus size: 49
42203 TGATCACATA
*
42213 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATA
1 TCACATATCGATGCCATAACCCAGCTATGGTCTTACACGTAATCACATA
*
42262 TCACATATCGATGTCATAACCCAGCTATGGTCTTACACG-AATCACATA
1 TCACATATCGATGCCATAACCCAGCTATGGTCTTACACGTAATCACATA
* * * * * * * *
42310 TCTCA-CT-GATGCTATATCCCAGATATGGTCTTATACGGT-AGCATATA
1 TCACATATCGATGCCATAACCCAGCTATGGTCTTACAC-GTAATCACATA
* * * *
42357 TCACA-CT-GATGCCATATCCTAGATATGGTCTTA
1 TCACATATCGATGCCATAACCCAGCTATGGTCTTA
42390 TACGAAAATC
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
46 24 0.21
47 38 0.34
48 13 0.12
49 37 0.33
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (49 bp):
TCACATATCGATGCCATAACCCAGCTATGGTCTTACACGTAATCACATA
Found at i:42361 original size:95 final size:97
Alignment explanation
Indices: 42122--42395 Score: 259
Period size: 95 Copynumber: 2.9 Consensus size: 97
42112 TTACACATCT
* *
42122 TCACATAAT-GATGCCATAGCCCAGCTATGGTCTT--AC---A-CATAT-TCATATATCGATGCC
1 TCACAT-ATCGATGCCATAGCCCAGATATGGTCTTACACGTAAGCATATATCACATATCGATGCC
* * *
42179 ATAGCCCAGCTATAGTCTTACACGTGATCACATA
65 ATAACCCAGCTATGGTCTTACACG-AATCACATA
* * * *
42213 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATCGATGTCA
1 TCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAGCATATATCACATATCGATGCCA
42278 TAACCCAGCTATGGTCTTACACGAATCACATA
66 TAACCCAGCTATGGTCTTACACGAATCACATA
* * * * * *
42310 TCTCA-CT-GATGCTATATCCCAGATATGGTCTTATACGGT-AGCATATATCACA-CT-GATGCC
1 TCACATATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAAGCATATATCACATATCGATGCC
* * * *
42370 ATATCCTAGATATGGTCTTATACGAA
65 ATAACCCAGCTATGGTCTTACACGAA
42396 AATCACTTGT
Statistics
Matches: 154, Mismatches: 20, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
90 2 0.01
91 31 0.20
93 29 0.19
94 1 0.01
95 36 0.23
96 4 0.03
97 16 0.10
98 35 0.23
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (97 bp):
TCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAGCATATATCACATATCGATGCCA
TAACCCAGCTATGGTCTTACACGAATCACATA
Found at i:42374 original size:47 final size:49
Alignment explanation
Indices: 42157--42389 Score: 253
Period size: 49 Copynumber: 4.8 Consensus size: 49
42147 TATGGTCTTA
* * *
42157 CACATATTCATATATCGATGCCATAGCCCAGCTATAGTCTTACACGTGAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
42207 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
* *
42256 CACATATCACATATCGATGTCATAACCCAGCTATGGTCTTACACG-AAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
* * * * * * *
42304 CACATATCTCA-CT-GATGCTATATCCCAGATATGGTCTTATACGGT-AG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GTAAT
* * * * *
42351 CATATATCACA-CT-GATGCCATATCCTAGATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTA
42390 TACGAAAATC
Statistics
Matches: 164, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
46 24 0.15
47 38 0.23
48 13 0.08
49 83 0.51
50 6 0.04
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
Found at i:43466 original size:19 final size:20
Alignment explanation
Indices: 43423--43478 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
43413 ATTGGGTCTT
43423 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
43443 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
43462 GCCCATAATTAA-ACAGT
1 GCCCAT-ATTAACACAGT
43479 CTCATATGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.38
20 20 0.62
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:46080 original size:31 final size:31
Alignment explanation
Indices: 46037--46123 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
46027 GGCGTTACAT
*
46037 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
46068 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
46099 GTAGCAGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
46124 TGTCACTGTA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:48439 original size:41 final size:41
Alignment explanation
Indices: 48273--48428 Score: 276
Period size: 41 Copynumber: 3.8 Consensus size: 41
48263 TTTATCGTTA
* *
48273 GTGACATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
48314 ATGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
48355 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
48396 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
48429 AAGAGCCGGT
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 110 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:48704 original size:33 final size:32
Alignment explanation
Indices: 48645--48708 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
48635 AGATATGTAT
48645 ATATATATATATGTTGCATTCAGCATAGGTGG
1 ATATATATATATGTTGCATTCAGCATAGGTGG
* * *
48677 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCAGCATAGGTG
48709 AAAATAAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCAGCATAGGTGG
Found at i:55278 original size:35 final size:36
Alignment explanation
Indices: 55178--55306 Score: 138
Period size: 35 Copynumber: 3.5 Consensus size: 36
55168 GGCAAAGTGT
* **
55178 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATTATCCCATACTGAGTTAA
55213 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATTATC----CCATACTGAGTTAA
* *
55253 GAAATGTAGGTATGGCATT-TCCCATACCGAGTTGAA
1 GAAATGTAGGTATGGTATTATCCCATACTGAGTT-AA
*
55289 -AAATGTAGGAATGGTATT
1 GAAATGTAGGTATGGTATT
55307 TCAATGAGGA
Statistics
Matches: 81, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
35 48 0.59
36 2 0.02
39 2 0.02
40 29 0.36
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (36 bp):
GAAATGTAGGTATGGTATTATCCCATACTGAGTTAA
Found at i:61474 original size:20 final size:20
Alignment explanation
Indices: 61438--61476 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
61428 ATTTTCAACA
61438 ATTAACATACATACATAAAT
1 ATTAACATACATACATAAAT
*
61458 ATTAATCAT-CATTCATAAA
1 ATTAA-CATACATACATAAA
61477 ATAACATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (20 bp):
ATTAACATACATACATAAAT
Found at i:65551 original size:21 final size:20
Alignment explanation
Indices: 65512--65556 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
65502 CAACGTGGCA
**
65512 AGTTAACTGGCCAGGTCAGC
1 AGTTAACTGGCCACATCAGC
*
65532 TAGTTAACTTGCCACATCAGC
1 -AGTTAACTGGCCACATCAGC
65553 AGTT
1 AGTT
65557 TTATTAAGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (20 bp):
AGTTAACTGGCCACATCAGC
Found at i:76408 original size:22 final size:22
Alignment explanation
Indices: 76383--76429 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
76373 CAAAAGGCTG
*
76383 TAAGAAAAATTATGAAGAATTC
1 TAAGAAAAATTAAGAAGAATTC
* *
76405 TAAGAGAAATTAAGATGAATTC
1 TAAGAAAAATTAAGAAGAATTC
76427 TAA
1 TAA
76430 TGTAGCTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (22 bp):
TAAGAAAAATTAAGAAGAATTC
Found at i:77149 original size:49 final size:49
Alignment explanation
Indices: 77057--77154 Score: 126
Period size: 49 Copynumber: 2.0 Consensus size: 49
77047 CCAACTTGCC
*
77057 AATGATCACTTGAAATGAAGCATCGGATAACCCCTTACATAATATGTCT
1 AATGATCACTTGAAATGAAGCATCGGATAACCCCTTACATAATAGGTCT
* * * * *
77106 AATGATCTCTTGATATGAAGCATTGGCTAACCTCTTAGC-TAATAGGTCT
1 AATGATCACTTGAAATGAAGCATCGGATAACCCCTTA-CATAATAGGTCT
77155 GCCATCTACC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 41 0.98
50 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (49 bp):
AATGATCACTTGAAATGAAGCATCGGATAACCCCTTACATAATAGGTCT
Found at i:77831 original size:76 final size:77
Alignment explanation
Indices: 77682--77831 Score: 185
Period size: 78 Copynumber: 1.9 Consensus size: 77
77672 TATCTAGTTG
* ** * * *
77682 AGTATGCGACAAGTAGATCAACTTCCCTTCTAGCTTTTGGTATCTTTCCTTATCAACAACTTCGT
1 AGTATGCGACAAGTAAATCAACCACCCTACTAGATATTGGTATC-TTCCTTATCAACAACTTCGT
77747 CGTCTTTTGATCA
65 CGTCTTTTGATCA
* * * * *
77760 AGTATGTGACGAGTAAATCAACCACCCTACTAGATATTGGTATC-TCCTTATCAATAGCTTTGTC
1 AGTATGCGACAAGTAAATCAACCACCCTACTAGATATTGGTATCTTCCTTATCAACAACTTCGTC
77824 GTCTTTTG
66 GTCTTTTG
77832 CTTCATTGAA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
76 25 0.41
78 36 0.59
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (77 bp):
AGTATGCGACAAGTAAATCAACCACCCTACTAGATATTGGTATCTTCCTTATCAACAACTTCGTC
GTCTTTTGATCA
Found at i:86435 original size:1 final size:1
Alignment explanation
Indices: 86429--86454 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
86419 ACTGAAATGC
86429 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
86455 GAAAGAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:105117 original size:20 final size:21
Alignment explanation
Indices: 105057--105117 Score: 52
Period size: 20 Copynumber: 2.9 Consensus size: 21
105047 TAAATTAAAT
*
105057 GAACTTGTTCATGAATACTTAA
1 GAACATGTTCATGAATA-TTAA
* * * *
105079 TGAATATATTCAAGTATATTAA
1 -GAACATGTTCATGAATATTAA
105101 -AACATGTTCATGAATAT
1 GAACATGTTCATGAATAT
105118 ATAATCAAAT
Statistics
Matches: 29, Mismatches: 9, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
20 13 0.45
22 4 0.14
23 12 0.41
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (21 bp):
GAACATGTTCATGAATATTAA
Found at i:110709 original size:13 final size:13
Alignment explanation
Indices: 110691--110719 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
110681 CTTTGAATCT
110691 ATTGGTACTTCAC
1 ATTGGTACTTCAC
110704 ATTGGTACTTCAC
1 ATTGGTACTTCAC
110717 ATT
1 ATT
110720 CAATACCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (13 bp):
ATTGGTACTTCAC
Found at i:116800 original size:22 final size:23
Alignment explanation
Indices: 116775--116820 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
116765 CAACCAAATC
116775 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
116797 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
116820 A
1 A
116821 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:116826 original size:23 final size:23
Alignment explanation
Indices: 116782--116826 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
116772 ATCAATTCAA
*
116782 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
116805 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
116827 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:136796 original size:76 final size:76
Alignment explanation
Indices: 136661--136817 Score: 260
Period size: 76 Copynumber: 2.1 Consensus size: 76
136651 TGATAATGGA
* * *
136661 AACCAAGTTTTAATTAGTAGCCTCTAATTTTAAAGTTCAATGGGTAAAAACAAGTTATCGTTATG
1 AACCAACTTTTAATTAGTAGCCTCTAATTTTAAAGTTCAATGAGTAAAAACAAGGTATCGTTATG
*
136726 TGTTTATGATG
66 TGTCTATGATG
*
136737 AACCAACTTTTAATTAGTAGCCTCTAATTTTAAAGTTCAATGAGTAAAAATAAGGTATCGTTATG
1 AACCAACTTTTAATTAGTAGCCTCTAATTTTAAAGTTCAATGAGTAAAAACAAGGTATCGTTATG
136802 TGTCTATGATG
66 TGTCTATGATG
*
136813 CACCA
1 AACCA
136818 TAAAAACTCA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (76 bp):
AACCAACTTTTAATTAGTAGCCTCTAATTTTAAAGTTCAATGAGTAAAAACAAGGTATCGTTATG
TGTCTATGATG
Found at i:137025 original size:47 final size:47
Alignment explanation
Indices: 136944--137035 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 47
136934 TTACAGAAAC
*
136944 TCTATCTATATAAACATAAGAAGTAATGTCGCTTCAATAATAAGAAT
1 TCTATCTATATAAACATAAGAAGTAATGTCGCTTCAACAATAAGAAT
* ** *
136991 TCTATCTATATAAACATAATAAGTGGTGTTGCTTCAACAATAAGA
1 TCTATCTATATAAACATAAGAAGTAATGTCGCTTCAACAATAAGA
137036 GGTGGAATCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (47 bp):
TCTATCTATATAAACATAAGAAGTAATGTCGCTTCAACAATAAGAAT
Found at i:137279 original size:105 final size:105
Alignment explanation
Indices: 137096--137292 Score: 304
Period size: 105 Copynumber: 1.9 Consensus size: 105
137086 CCATATTAGT
**
137096 GCTAAAAGTGAACAACCTTTGACAAATCTATAAATGAATACTATGTGTAGTGTATTTCAACTTCT
1 GCTAAAAGTGAACAACCTTTGACAAAAATATAAATGAATACTATGTGTAGTGTATTTCAACTTCT
*
137161 AATACTAGGAGTTGTAGTTCAATTTTCAGACTCCAACTAA
66 AAAACTAGGAGTTGTAGTTCAATTTTCAGACTCCAACTAA
* * * *
137201 GCTAAAAGTGAACAACCTTTGATAAAAATATAATTGAATATTATGTGTGGTGTATTTCAACTTCT
1 GCTAAAAGTGAACAACCTTTGACAAAAATATAAATGAATACTATGTGTAGTGTATTTCAACTTCT
* * *
137266 AAAATTAGTAGTTGTAGTTTAATTTTC
66 AAAACTAGGAGTTGTAGTTCAATTTTC
137293 GGACCTCAAC
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 82 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37
Consensus pattern (105 bp):
GCTAAAAGTGAACAACCTTTGACAAAAATATAAATGAATACTATGTGTAGTGTATTTCAACTTCT
AAAACTAGGAGTTGTAGTTCAATTTTCAGACTCCAACTAA
Found at i:139373 original size:11 final size:11
Alignment explanation
Indices: 139357--139393 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
139347 TTTTAGTGTT
139357 TCGATTTTCAA
1 TCGATTTTCAA
139368 TCGATTTTCAA
1 TCGATTTTCAA
* *
139379 TCAATTTTCAT
1 TCGATTTTCAA
139390 TCGA
1 TCGA
139394 CGACTGTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (11 bp):
TCGATTTTCAA
Found at i:139725 original size:48 final size:48
Alignment explanation
Indices: 139646--139740 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
139636 TTATGATTGA
*
139646 TGACCTTAAGAAGTTATTTTGGTAGAGGAGGTCGAAAGAATAGTCTAC
1 TGACCTTAAGAAGTTATTTTGATAGAGGAGGTCGAAAGAATAGTCTAC
* * *
139694 TGACCTTAGGAAGTTGTTTTGATAGATGAGGTCGAAAGAATAGTCTA
1 TGACCTTAAGAAGTTATTTTGATAGAGGAGGTCGAAAGAATAGTCTA
139741 TGAGTATCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (48 bp):
TGACCTTAAGAAGTTATTTTGATAGAGGAGGTCGAAAGAATAGTCTAC
Found at i:142222 original size:18 final size:18
Alignment explanation
Indices: 142151--142222 Score: 65
Period size: 18 Copynumber: 4.0 Consensus size: 18
142141 CTTTATCAAT
142151 ATTATTCAGTAAC-GATCA
1 ATTATTCAGTAACAG-TCA
* * * *
142169 ATTGTTCAATGACAATCA
1 ATTATTCAGTAACAGTCA
* *
142187 GTTATTCAGTATCAGTCA
1 ATTATTCAGTAACAGTCA
*
142205 ATTATTCAGTAACTGTCA
1 ATTATTCAGTAACAGTCA
142223 GTATCATTTA
Statistics
Matches: 40, Mismatches: 13, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (18 bp):
ATTATTCAGTAACAGTCA
Found at i:144927 original size:25 final size:24
Alignment explanation
Indices: 144888--144974 Score: 68
Period size: 25 Copynumber: 3.5 Consensus size: 24
144878 TCTATTTCTA
* *
144888 TTTTCTGTTTGTTTCTTCCTTG-T
1 TTTTTTGTTTTTTTCTTCCTTGTT
* * *
144911 TTTTTTGCTTTTTTTTCCTGCTTCTT
1 TTTTTTG--TTTTTTTCTTCCTTGTT
* *
144937 TTTTTTGTTTTTTCCTTCTTTGTT
1 TTTTTTGTTTTTTTCTTCCTTGTT
*
144961 TTTTCTTGTGTTTT
1 TTTT-TTGTTTTTT
144975 GCGTGCTTTG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
23 6 0.12
24 16 0.33
25 19 0.39
26 8 0.16
ACGTcount: A:0.00, C:0.15, G:0.10, T:0.75
Consensus pattern (24 bp):
TTTTTTGTTTTTTTCTTCCTTGTT
Found at i:144962 original size:23 final size:23
Alignment explanation
Indices: 144888--144964 Score: 68
Period size: 23 Copynumber: 3.2 Consensus size: 23
144878 TCTATTTCTA
* *
144888 TTTTCTGTTTGTTT-CTTCCTTGT
1 TTTTTTGTTT-TTTCCTTCTTTGT
*
144911 TTTTTTGCTTTTTTTTCCTGCTTCT-T
1 TTTTTTG---TTTTTTCCTTCTT-TGT
144937 TTTTTTGTTTTTTCCTTCTTTGT
1 TTTTTTGTTTTTTCCTTCTTTGT
144960 TTTTT
1 TTTTT
144965 CTTGTGTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
22 1 0.02
23 24 0.55
25 3 0.07
26 15 0.34
27 1 0.02
ACGTcount: A:0.00, C:0.16, G:0.09, T:0.75
Consensus pattern (23 bp):
TTTTTTGTTTTTTCCTTCTTTGT
Found at i:146121 original size:27 final size:26
Alignment explanation
Indices: 146074--146255 Score: 204
Period size: 27 Copynumber: 6.8 Consensus size: 26
146064 CGAGGCTGCA
* *
146074 AGATATTGTGAC-GAAGTCACCAGATAC
1 AGATATTGTGGCAG-AGCCACCAGA-AC
*
146101 AGATATTGTGGCAGAGCCACCAGAAT
1 AGATATTGTGGCAGAGCCACCAGAAC
*
146127 AGATATATGTGGCAGAGCCACCAGAAT
1 AGATAT-TGTGGCAGAGCCACCAGAAC
*
146154 AGATATATGTGGCAGAGCCACCAGATC
1 AGATAT-TGTGGCAGAGCCACCAGAAC
* * *
146181 AGATAATCGTGGCATAGCCACCAGAAT
1 AGAT-ATTGTGGCAGAGCCACCAGAAC
*
146208 AGATATATGTGGCAGAGCCACCAGAGC
1 AGATAT-TGTGGCAGAGCCACCAGAAC
*
146235 AGATAATTGTGGCATAGCCAC
1 AGAT-ATTGTGGCAGAGCCAC
146256 TAGGACGCTT
Statistics
Matches: 136, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
26 9 0.07
27 122 0.90
28 5 0.04
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:146165 original size:54 final size:53
Alignment explanation
Indices: 146091--146255 Score: 235
Period size: 54 Copynumber: 3.1 Consensus size: 53
146081 GTGACGAAGT
* *
146091 CACCAGATACAGATAT-TGTGGCAGAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGA-ATAGATATATGTGGCAGAGCCACCAGAATAGATA-ATGTGGCATAGC
146145 CACCAGAATAGATATATGTGGCAGAGCCACCAG-ATCAGATAATCGTGGCATAGC
1 CACCAGAATAGATATATGTGGCAGAGCCACCAGAAT-AGATAAT-GTGGCATAGC
**
146199 CACCAGAATAGATATATGTGGCAGAGCCACCAGAGCAGATAATTGTGGCATAGC
1 CACCAGAATAGATATATGTGGCAGAGCCACCAGAATAGATAA-TGTGGCATAGC
146253 CAC
1 CAC
146256 TAGGACGCTT
Statistics
Matches: 102, Mismatches: 4, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
53 11 0.11
54 90 0.88
55 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (53 bp):
CACCAGAATAGATATATGTGGCAGAGCCACCAGAATAGATAATGTGGCATAGC
Found at i:146193 original size:81 final size:81
Alignment explanation
Indices: 146091--146255 Score: 253
Period size: 81 Copynumber: 2.0 Consensus size: 81
146081 GTGACGAAGT
* *
146091 CACCAGATACAGATATTGTGGCAGAGCCACCAGAATAGATATATGTGGCAGAGCCACCAGAATAG
1 CACCAGATACAGATATCGTGGCAGAGCCACCAGAATAGATATATGTGGCAGAGCCACCAGAACAG
146156 AT-ATATGTGGCAGAGC
66 ATAAT-TGTGGCAGAGC
* *
146172 CACCAGAT-CAGATAATCGTGGCATAGCCACCAGAATAGATATATGTGGCAGAGCCACCAGAGCA
1 CACCAGATACAGAT-ATCGTGGCAGAGCCACCAGAATAGATATATGTGGCAGAGCCACCAGAACA
*
146236 GATAATTGTGGCATAGC
65 GATAATTGTGGCAGAGC
146253 CAC
1 CAC
146256 TAGGACGCTT
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
80 5 0.06
81 70 0.91
82 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (81 bp):
CACCAGATACAGATATCGTGGCAGAGCCACCAGAATAGATATATGTGGCAGAGCCACCAGAACAG
ATAATTGTGGCAGAGC
Found at i:146426 original size:28 final size:26
Alignment explanation
Indices: 146364--146437 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 26
146354 AAATTAACCC
** * *
146364 TAGGGGTATAACGGTAATTTTGTACC
1 TAGGGGTATAATAGTAATTTTATACA
146390 TAGGGGTATAATAGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTT--ATACA
*
146418 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
146438 AGCTACTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 19 0.46
28 22 0.54
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTATACA
Found at i:147917 original size:26 final size:26
Alignment explanation
Indices: 147886--147993 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
147876 TGAAATGCCC
*
147886 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
147912 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
147938 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
147964 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
147990 ATCA
1 ATCA
147994 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:151606 original size:8 final size:8
Alignment explanation
Indices: 151564--151588 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
151554 ATATAGACTA
151564 AATAAAAT
1 AATAAAAT
151572 AATAAAAT
1 AATAAAAT
151580 AATAAAAT
1 AATAAAAT
151588 A
1 A
151589 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:151612 original size:29 final size:31
Alignment explanation
Indices: 151561--151633 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 31
151551 TATATATAGA
*
151561 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
151590 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
151621 CTAATT-AAATAAT
1 CTAATTAAAATAAT
151634 TTCATCAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 6 0.17
29 14 0.39
30 6 0.17
31 10 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:151878 original size:13 final size:13
Alignment explanation
Indices: 151847--151887 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
151837 ATATAGATAA
*
151847 TATAATAATAA-C
1 TATAATAAAAATC
*
151859 AATAATAAAAATC
1 TATAATAAAAATC
151872 TATAATAAAAATC
1 TATAATAAAAATC
151885 TAT
1 TAT
151888 TTAATGACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 9 0.36
13 16 0.64
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (13 bp):
TATAATAAAAATC
Found at i:153885 original size:27 final size:25
Alignment explanation
Indices: 153833--153885 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
153823 CAACTCTTCT
*
153833 AAAAGAAACTCAAGAGAAATTCTTA
1 AAAAGAAACTCAAGAGAAATTATTA
*
153858 AAAAGAAAACTCAAAGAGAATTTATTA
1 AAAAG-AAACTC-AAGAGAAATTATTA
153885 A
1 A
153886 CTCAAAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 6 0.25
27 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.11, T:0.21
Consensus pattern (25 bp):
AAAAGAAACTCAAGAGAAATTATTA
Found at i:157255 original size:40 final size:41
Alignment explanation
Indices: 157200--157286 Score: 122
Period size: 40 Copynumber: 2.1 Consensus size: 41
157190 TATAATCAAT
*
157200 TTTTATTATATTTTTTAATTTGTGTATTGTTTTAAGAATTG
1 TTTTAATATATTTTTTAATTTGTGTATTGTTTTAAGAATTG
* * * *
157241 TTTTAATATATTTTTT-ATTTGTTTCTTGTTTTAATATTTG
1 TTTTAATATATTTTTTAATTTGTGTATTGTTTTAAGAATTG
157281 TTTTAA
1 TTTTAA
157287 ATGTATTTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 26 0.63
41 15 0.37
ACGTcount: A:0.23, C:0.01, G:0.09, T:0.67
Consensus pattern (41 bp):
TTTTAATATATTTTTTAATTTGTGTATTGTTTTAAGAATTG
Found at i:157528 original size:3 final size:3
Alignment explanation
Indices: 157513--157674 Score: 66
Period size: 3 Copynumber: 53.3 Consensus size: 3
157503 CCTCTACGTC
* * *
157513 TTA TTA ATA TTA TTA TTA TAA TCTCA TT- TTA TTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-T-A TTA TTA TTA TTA TTA TTA TTA
* * * * * *
157559 TTA ATA -CA TTA TTA TTT TTA CTA -TA CTA TTA TTA TTCCC TT- TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT--A TTA TTA
* ** *
157602 TTA TATA TTA TTA TTA TTG TTA TTA ACA -TA TTA TTA TTAA TGTA TTG
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA
* * *
157649 TTA CTC TCTA TTA CTA TTA TTA TTA T
1 TTA TTA T-TA TTA TTA TTA TTA TTA T
157675 CTTAGTATTA
Statistics
Matches: 119, Mismatches: 27, Indels: 26
0.69 0.16 0.15
Matches are distributed among these distances:
2 10 0.08
3 94 0.79
4 10 0.08
5 5 0.04
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:157553 original size:14 final size:15
Alignment explanation
Indices: 157513--157574 Score: 76
Period size: 14 Copynumber: 4.3 Consensus size: 15
157503 CCTCTACGTC
*
157513 TTATTAATATTATTA
1 TTATTAATATCATTA
*
157528 TTA-TAATCTCATT-
1 TTATTAATATCATTA
*
157541 TTATTATTATCATTA
1 TTATTAATATCATTA
157556 TTATTAATA-CATTA
1 TTATTAATATCATTA
157570 TTATT
1 TTATT
157575 TTTACTATAC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
13 3 0.08
14 26 0.65
15 11 0.28
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATTAATATCATTA
Found at i:157574 original size:17 final size:17
Alignment explanation
Indices: 157552--157594 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
157542 TATTATTATC
*
157552 ATTATTATTAATACATT
1 ATTATTATTAATACACT
* * *
157569 ATTATTTTTACTATACT
1 ATTATTATTAATACACT
157586 ATTATTATT
1 ATTATTATT
157595 CCCTTTTTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTATTATTAATACACT
Found at i:157592 original size:23 final size:22
Alignment explanation
Indices: 157566--157640 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 22
157556 TTATTAATAC
157566 ATTATTATTTTTACTATACTATT
1 ATTATTATTTTTA-TATACTATT
*
157589 ATTATTCCCTTTTT-TATA-TATT
1 ATTATT--ATTTTTATATACTATT
*
157611 ATTATTATTGTTAT-TAACATATT
1 ATTATTATTTTTATAT-AC-TATT
157634 ATTATTA
1 ATTATTA
157641 ATGTATTGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
20 5 0.12
21 2 0.05
22 10 0.23
23 21 0.49
25 5 0.12
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (22 bp):
ATTATTATTTTTATATACTATT
Found at i:157786 original size:7 final size:7
Alignment explanation
Indices: 157757--157802 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
157747 TTATTACTTT
157757 ATTATTA
1 ATTATTA
*
157764 ATTTAGT-
1 A-TTATTA
*
157771 ATTAGTA
1 ATTATTA
157778 ATTATTA
1 ATTATTA
157785 ATTATTA
1 ATTATTA
157792 ATTATT-
1 ATTATTA
157798 ATTAT
1 ATTAT
157803 CGTTATTGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 10 0.29
7 21 0.60
8 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (7 bp):
ATTATTA
Found at i:157899 original size:3 final size:3
Alignment explanation
Indices: 157893--157935 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
157883 TTGTTGTGTC
* * *
157893 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT TTT GTT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
157936 ATTTTAATTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:157914 original size:15 final size:15
Alignment explanation
Indices: 157894--157935 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
157884 TGTTGTGTCA
157894 TTATTATTATTATTG
1 TTATTATTATTATTG
*
157909 TTATTATTATTATTT
1 TTATTATTATTATTG
*
157924 TTGTTATTATTA
1 TTATTATTATTA
157936 ATTTTAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (15 bp):
TTATTATTATTATTG
Found at i:157916 original size:18 final size:18
Alignment explanation
Indices: 157893--157935 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
157883 TTGTTGTGTC
157893 ATTATTATTATTATTGTT
1 ATTATTATTATTATTGTT
*
157911 ATTATTATTATTTTTGTT
1 ATTATTATTATTATTGTT
157929 ATTATTA
1 ATTATTA
157936 ATTTTAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (18 bp):
ATTATTATTATTATTGTT
Found at i:157940 original size:15 final size:15
Alignment explanation
Indices: 157894--157941 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
157884 TGTTGTGTCA
157894 TTATTATTATT-ATT
1 TTATTATTATTAATT
*
157908 GTTATTATTATTATTT
1 -TTATTATTATTAATT
*
157924 TTGTTATTATTAATT
1 TTATTATTATTAATT
157939 TTA
1 TTA
157942 ATTCTTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 26 0.93
16 2 0.07
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (15 bp):
TTATTATTATTAATT
Found at i:167874 original size:27 final size:27
Alignment explanation
Indices: 167843--167908 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
167833 TAGTTGAACT
* *
167843 ATGGCGAAGTGATAAAGCGTGCCAAAC
1 ATGGCAAAGTGATAAAGAGTGCCAAAC
*
167870 ATGGCAAAGTGATAAAGAGTGCCAAAT
1 ATGGCAAAGTGATAAAGAGTGCCAAAC
167897 ATGGCAAAGTGA
1 ATGGCAAAGTGA
167909 AATGTGACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.41, C:0.14, G:0.29, T:0.17
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGAGTGCCAAAC
Found at i:169240 original size:5 final size:5
Alignment explanation
Indices: 169214--169271 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
169204 ATGTGTTAAA
* *
169214 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
169263 ATATT ATAT
1 ATATT ATAT
169272 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:169250 original size:10 final size:9
Alignment explanation
Indices: 169215--169272 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
169205 TGTGTTAAAA
169215 TATATATAT
1 TATATATAT
*
169224 TAAAT-TAT
1 TATATATAT
169232 TAT-TATAT
1 TATATATAT
169240 TATAGTATAT
1 TATA-TATAT
169250 TATAT-TA-
1 TATATATAT
169257 TATATTATAT
1 TATA-TATAT
169267 TATATA
1 TATATA
169273 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:169262 original size:12 final size:12
Alignment explanation
Indices: 169217--169272 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
169207 TGTTAAAATA
*
169217 TATATATTAAAT
1 TATATATTATAT
169229 TAT-TATTATATT
1 TATATATTATA-T
169241 ATAGTATATTATAT
1 -TA-TATATTATAT
169255 TATATATTATAT
1 TATATATTATAT
169267 TATATA
1 TATATA
169273 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:170616 original size:18 final size:19
Alignment explanation
Indices: 170593--170631 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
170583 ATATATAGAT
170593 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
170611 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
170630 AT
1 AT
170632 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:170981 original size:39 final size:39
Alignment explanation
Indices: 170871--171005 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
170861 GACCTCGAGT
* * * *
170871 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
170912 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
170950 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
170989 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
171006 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:171149 original size:18 final size:19
Alignment explanation
Indices: 171128--171168 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
171118 AATGAAATGA
171128 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
171146 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
171165 GAAA
1 GAAA
171169 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:172560 original size:18 final size:18
Alignment explanation
Indices: 172537--172579 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
172527 GAATAGATTT
172537 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
172555 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
172573 TTAATTA
1 TTAATTA
172580 TACCTTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:173169 original size:16 final size:16
Alignment explanation
Indices: 173148--173216 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
173138 TTTGGTTCGC
173148 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
173164 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
173180 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
173197 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
173213 TGTA
1 TGTA
173217 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:173194 original size:33 final size:32
Alignment explanation
Indices: 173148--173216 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
173138 TTTGGTTCGC
173148 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
173180 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
173213 TGTA
1 TGTA
173217 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:173281 original size:44 final size:45
Alignment explanation
Indices: 173197--173287 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
173187 GGATTAGAGG
* * *
173197 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
173242 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
173286 TG
1 TG
173288 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:173469 original size:16 final size:16
Alignment explanation
Indices: 173432--173486 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
173422 TTAATCATAT
*
173432 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
173448 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
173463 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
173481 -TAAAAT
1 TTAAAAT
173487 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:173479 original size:18 final size:18
Alignment explanation
Indices: 173438--173486 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
173428 ATATTTAAAC
173438 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
173456 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
173472 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
173487 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:173623 original size:156 final size:156
Alignment explanation
Indices: 173339--173666 Score: 584
Period size: 156 Copynumber: 2.1 Consensus size: 156
173329 TAGAATACCC
* *
173339 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
173404 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATCTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
173469 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
* *
173495 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAGTTTTAATAGGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
* *
173560 TTATCAGTAATAAATATCTTAATCATATTTAAACTTAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATCTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
173625 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
173651 TTAGCAGAAATTTGTT
1 TTAGCAGAAAATTGTT
173667 ATTGTTATTT
Statistics
Matches: 164, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
156 164 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATCTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:173629 original size:18 final size:17
Alignment explanation
Indices: 173608--173642 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
173598 TTATTATTAA
*
173608 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
173626 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
173643 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:173633 original size:137 final size:136
Alignment explanation
Indices: 173525--173803 Score: 407
Period size: 137 Copynumber: 2.0 Consensus size: 136
173515 TAAATGATTA
* * * *
173525 TTGTTAATGTTATTTAAGTTTTAATAGGATTATTATTATCAGTAATAAAT-ATCTTAATCATATT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAAT-TTAATCATATT
* * *
173589 TAAACTTAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTA
65 TAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TTAAGAAAATTCTTATAAGTA
*
173654 GCAGAAAT
129 GAAGAAAT
*
173662 TTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
* *
173727 AAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAG
66 AAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TTAAGAAAATTCTTATAAGTAG
* *
173792 CAGAAAA
130 AAGAAAT
173799 TTGTT
1 TTGTT
173804 TTGGTAAATG
Statistics
Matches: 134, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
137 132 0.99
138 2 0.01
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (136 bp):
TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
AAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTAAGAAAATTCTTATAAGTAGA
AGAAAT
Found at i:173639 original size:67 final size:67
Alignment explanation
Indices: 173567--173777 Score: 193
Period size: 67 Copynumber: 3.1 Consensus size: 67
173557 TTATTATCAG
173567 TAATAAATATCTTAATCATATTTAAACTTAATTATTATTAAATATATTTTAATTAAAATATATAA
1 TAATAAATATCTTAATCATATTTAAACTTAATTATTATTAAATATATTTTAATTAAAATATATAA
173632 TT
66 TT
* * ** * ** * *
173634 TAATAAA-ATTCTT-AT-A-ATTAGCAGAAATTTGTTATTGTTATTTAAATTTTAA-TAAGAT-T
1 TAATAAATA-TCTTAATCATATT--TA-AACTTAATTATTATTAAATATATTTTAATTAAAATAT
173693 ATTAATAT
62 A-TAAT-T
*
173701 CAATAATAAATAAT-TTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATAT
1 ---TAATAAAT-ATCTTAATCATATTTAAACTTAATTATTATTAAATATATTTTAATTAAAATAT
173765 ATAATT
62 ATAATT
173771 TAATAAA
1 TAATAAA
173778 ATTCTTATAA
Statistics
Matches: 109, Mismatches: 19, Indels: 32
0.68 0.12 0.20
Matches are distributed among these distances:
64 3 0.03
65 3 0.03
66 13 0.12
67 40 0.37
70 30 0.28
71 13 0.12
72 4 0.04
73 3 0.03
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (67 bp):
TAATAAATATCTTAATCATATTTAAACTTAATTATTATTAAATATATTTTAATTAAAATATATAA
TT
Found at i:173766 original size:18 final size:17
Alignment explanation
Indices: 173745--173779 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
173735 TTATTATTAA
*
173745 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
173763 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
173780 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:173891 original size:13 final size:13
Alignment explanation
Indices: 173873--173899 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
173863 TATTTTAATA
173873 AAATTGTTTTGGT
1 AAATTGTTTTGGT
173886 AAATTGTTTTGGT
1 AAATTGTTTTGGT
173899 A
1 A
173900 TTTAAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (13 bp):
AAATTGTTTTGGT
Found at i:179746 original size:67 final size:67
Alignment explanation
Indices: 179638--179773 Score: 272
Period size: 67 Copynumber: 2.0 Consensus size: 67
179628 CCAAAGATAA
179638 CACTAAAGAATTAATCAGGATTTCATAACAGAATTCAAATACAAATCAAAACCTAGAAATTTCAG
1 CACTAAAGAATTAATCAGGATTTCATAACAGAATTCAAATACAAATCAAAACCTAGAAATTTCAG
179703 TT
66 TT
179705 CACTAAAGAATTAATCAGGATTTCATAACAGAATTCAAATACAAATCAAAACCTAGAAATTTCAG
1 CACTAAAGAATTAATCAGGATTTCATAACAGAATTCAAATACAAATCAAAACCTAGAAATTTCAG
179770 TT
66 TT
179772 CA
1 CA
179774 TCGTTCTTAC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (67 bp):
CACTAAAGAATTAATCAGGATTTCATAACAGAATTCAAATACAAATCAAAACCTAGAAATTTCAG
TT
Found at i:184912 original size:43 final size:43
Alignment explanation
Indices: 184864--184955 Score: 184
Period size: 43 Copynumber: 2.1 Consensus size: 43
184854 TCAAGACCAA
184864 TTGTTTGGAAGATGGGAAAAATCAAGAGTTAGAGTTTATTTAT
1 TTGTTTGGAAGATGGGAAAAATCAAGAGTTAGAGTTTATTTAT
184907 TTGTTTGGAAGATGGGAAAAATCAAGAGTTAGAGTTTATTTAT
1 TTGTTTGGAAGATGGGAAAAATCAAGAGTTAGAGTTTATTTAT
184950 TTGTTT
1 TTGTTT
184956 ATTTTGTTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.33, C:0.02, G:0.25, T:0.40
Consensus pattern (43 bp):
TTGTTTGGAAGATGGGAAAAATCAAGAGTTAGAGTTTATTTAT
Found at i:198795 original size:6 final size:6
Alignment explanation
Indices: 198784--198812 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
198774 ATCATGCCAT
198784 GCTTAC GCTTAC GCTTAC GCTTAC GCTTA
1 GCTTAC GCTTAC GCTTAC GCTTAC GCTTA
198813 TCCGTACCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.34
Consensus pattern (6 bp):
GCTTAC
Found at i:214423 original size:21 final size:22
Alignment explanation
Indices: 214370--214428 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
214360 GATACCTATG
214370 CATAGTATATATATAAAAATGT
1 CATAGTATATATATAAAAATGT
214392 -ATACGTA-ATATAATAAAAAT-T
1 CATA-GTATATAT-ATAAAAATGT
214413 ACATAGTATATATATA
1 -CATAGTATATATATA
214429 TGTTAGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
21 8 0.25
22 17 0.53
23 7 0.22
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.36
Consensus pattern (22 bp):
CATAGTATATATATAAAAATGT
Found at i:214658 original size:18 final size:19
Alignment explanation
Indices: 214615--214660 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
214605 TAGCGTATAG
*
214615 GTAATTATATATAAAAAAT
1 GTAATAATATATAAAAAAT
*
214634 GTTATAATA-ATAATAAAA-
1 GTAATAATATATAA-AAAAT
214652 GTAATAATA
1 GTAATAATA
214661 CAATAGTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
GTAATAATATATAAAAAAT
Found at i:214815 original size:9 final size:9
Alignment explanation
Indices: 214792--214842 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
214782 TATTAAAAGC
214792 ATATACATAA
1 ATATACAT-A
214802 TATATACATA
1 -ATATACATA
*
214812 ATATACAAA
1 ATATACATA
*
214821 ATA-AAAT-
1 ATATACATA
214828 ATATACATA
1 ATATACATA
214837 ATATAC
1 ATATAC
214843 TTAAAATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
7 3 0.09
8 5 0.15
9 17 0.50
10 1 0.03
11 8 0.24
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (9 bp):
ATATACATA
Found at i:217624 original size:15 final size:15
Alignment explanation
Indices: 217604--217645 Score: 54
Period size: 13 Copynumber: 3.0 Consensus size: 15
217594 CAATTTTTTA
217604 TCAAAAAAAAATTGT
1 TCAAAAAAAAATTGT
*
217619 TC-AAAAAAAA-T-A
1 TCAAAAAAAAATTGT
217631 TCAAAAAAAAATTGT
1 TCAAAAAAAAATTGT
217646 ATATATTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
12 2 0.09
13 9 0.41
14 9 0.41
15 2 0.09
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.24
Consensus pattern (15 bp):
TCAAAAAAAAATTGT
Found at i:220868 original size:6 final size:6
Alignment explanation
Indices: 220810--220864 Score: 67
Period size: 6 Copynumber: 9.3 Consensus size: 6
220800 AATCGTCCTC
* * *
220810 CGCCAT CGCCAT CGCAAT CGCAAT CGCCAT CGCCAT CGCCA- CGTCAT
1 CGCCAT CGCCAT CGCCAT CGCCAT CGCCAT CGCCAT CGCCAT CGCCAT
*
220857 CGTCAT CG
1 CGCCAT CG
220865 TCATGGCCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
5 4 0.09
6 41 0.91
ACGTcount: A:0.20, C:0.44, G:0.18, T:0.18
Consensus pattern (6 bp):
CGCCAT
Found at i:221982 original size:6 final size:6
Alignment explanation
Indices: 221971--222053 Score: 87
Period size: 6 Copynumber: 13.8 Consensus size: 6
221961 CAACGATGGG
* * * * *
221971 TCCGGT TCCGGT TCGGGT TCCGGT TCTGGT TCTGGT TCTGGT TCTGGT
1 TCCGGT TCCGGT TCCGGT TCCGGT TCCGGT TCCGGT TCCGGT TCCGGT
* *
222019 TCCGG- TCCTGGT TCCGAT TCCGAT TCCGGT TCCGG
1 TCCGGT TCC-GGT TCCGGT TCCGGT TCCGGT TCCGG
222054 CTCCAAGAAG
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
5 3 0.04
6 63 0.91
7 3 0.04
ACGTcount: A:0.02, C:0.28, G:0.33, T:0.37
Consensus pattern (6 bp):
TCCGGT
Found at i:231438 original size:23 final size:23
Alignment explanation
Indices: 231407--231450 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
231397 GTCTTATATG
231407 CTCAACTAGATTAAATTGGAGCT
1 CTCAACTAGATTAAATTGGAGCT
*
231430 CTCAGCTAGATTAAATTGGAG
1 CTCAACTAGATTAAATTGGAG
231451 GCCACGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (23 bp):
CTCAACTAGATTAAATTGGAGCT
Found at i:232408 original size:12 final size:13
Alignment explanation
Indices: 232383--232407 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
232373 AATTTTAATC
232383 AAATAAATTTTTT
1 AAATAAATTTTTT
232396 AAATAAATTTTT
1 AAATAAATTTTT
232408 ATACAATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAATAAATTTTTT
Found at i:244279 original size:19 final size:20
Alignment explanation
Indices: 244255--244292 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
244245 GGTACCACCA
244255 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
244274 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
244293 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:244632 original size:93 final size:93
Alignment explanation
Indices: 244522--244692 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
244512 GCCCCTAAGT
* * *
244522 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCGTCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
244587 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
244615 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
244680 CGAGTTCGGATGC
66 CGAGTTCGGATGC
244693 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:244689 original size:46 final size:46
Alignment explanation
Indices: 244517--244689 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
244507 AACCCGCCCC
* * * *
244517 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCGTCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
* * * *
244563 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATCCA
* *
244611 TCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
*
244656 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
244690 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.57
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
Found at i:245146 original size:30 final size:30
Alignment explanation
Indices: 245112--245171 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
245102 ATTTAATACG
*
245112 AACTTTAATAAAATTACACTTTTGCCCCTA
1 AACTTTAACAAAATTACACTTTTGCCCCTA
** *
245142 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAACAAAATTACACTTTTGCCCCTA
245172 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTAACAAAATTACACTTTTGCCCCTA
Found at i:247069 original size:30 final size:30
Alignment explanation
Indices: 247033--247095 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
247023 ACTTAATAAG
*
247033 CAAATGCCTCTAAAATAATAACAAATTTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
247063 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
247093 CAA
1 CAA
247096 TAAAGTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:249203 original size:50 final size:50
Alignment explanation
Indices: 249126--249301 Score: 235
Period size: 50 Copynumber: 3.5 Consensus size: 50
249116 TATGGCAACC
* * * *
249126 AGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAAGATAAGTGAA
1 AGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
* * *
249176 AGTGATAAGTAATAACTTCGGCAACACTAATCTGATCAAGGACAAGTGAA
1 AGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
* * *
249226 AGTGATAAGGGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGACA
1 AGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAGTGA-A
* *
249277 AGTGAAAAGTGGTAACTTCGGCTAC
1 AGTGATAAGTGATAACTTCGGCTAC
249302 CTGATCAGTG
Statistics
Matches: 108, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 86 0.80
51 22 0.20
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (50 bp):
AGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
Found at i:249315 original size:31 final size:31
Alignment explanation
Indices: 249277--249394 Score: 200
Period size: 31 Copynumber: 3.8 Consensus size: 31
249267 ACAAATGACA
*
249277 AGTGAAAAGTGGTAACTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
249308 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
249339 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
249370 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
249395 AAGTGACAAG
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:249535 original size:49 final size:49
Alignment explanation
Indices: 249413--249553 Score: 171
Period size: 49 Copynumber: 2.9 Consensus size: 49
249403 AGTGATTTCC
* * *
249413 GTATAAGACCATATCTGGGATATGGCATCG--GTGTAATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGATATGTGATATGTGCTACT
*
249460 GTATAAGACCATATCTGGGATATGGCATCGATATGTGATATGTGATTAC-
1 GTATAAGACCATATCTGGGATATGGCATCGATATGTGATATGTG-CTACT
* * * *
249509 GTGTAAGACCATAGCTGGGTTATGGCATCGATATATGAATATGTG
1 GTATAAGACCATATCTGGGATATGGCATCGATATGTG-ATATGTG
249554 TAAGACCATA
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
47 30 0.37
49 42 0.51
50 10 0.12
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.32
Consensus pattern (49 bp):
GTATAAGACCATATCTGGGATATGGCATCGATATGTGATATGTGCTACT
Found at i:259128 original size:7 final size:7
Alignment explanation
Indices: 259116--259140 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
259106 AGTATAAGGA
259116 TGAAAAT
1 TGAAAAT
259123 TGAAAAT
1 TGAAAAT
259130 TGAAAAT
1 TGAAAAT
259137 TGAA
1 TGAA
259141 TATAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (7 bp):
TGAAAAT
Found at i:269075 original size:16 final size:17
Alignment explanation
Indices: 269051--269083 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
269041 TTATTTTGGG
269051 GGAAAATGCAAA-AAAA
1 GGAAAATGCAAACAAAA
*
269067 GGAACATGCAAACAAAA
1 GGAAAATGCAAACAAAA
269084 TAGAGTAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.64, C:0.12, G:0.18, T:0.06
Consensus pattern (17 bp):
GGAAAATGCAAACAAAA
Found at i:269326 original size:6 final size:6
Alignment explanation
Indices: 269315--269389 Score: 96
Period size: 6 Copynumber: 12.5 Consensus size: 6
269305 TAGTTGAGTA
* *
269315 GAGCCT GAGCCT GAGACT GAGCCT GAGCTT GAGCCT GAGCCT GAGCCT
1 GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT
* * * *
269363 GTGCCT GTGCCT GTGCCT GTGCCT GAG
1 GAGCCT GAGCCT GAGCCT GAGCCT GAG
269390 TTTATTGTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.13, C:0.29, G:0.35, T:0.23
Consensus pattern (6 bp):
GAGCCT
Found at i:283909 original size:9 final size:9
Alignment explanation
Indices: 283895--283946 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
283885 TTTGGTTAAA
283895 AATTACCCG
1 AATTACCCG
283904 AATTACCCG
1 AATTACCCG
283913 AATTACCCG
1 AATTACCCG
*
283922 AATTAACCG
1 AATTACCCG
*
283931 AATTAACCG
1 AATTACCCG
283940 AATTACC
1 AATTACC
283947 GAAAAATACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Done.